Query 042599
Match_columns 214
No_of_seqs 215 out of 1077
Neff 8.5
Searched_HMMs 46136
Date Fri Mar 29 07:45:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042599.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042599hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3178 Hydroxyindole-O-methyl 100.0 8.3E-32 1.8E-36 225.5 14.8 205 2-213 18-268 (342)
2 PF00891 Methyltransf_2: O-met 100.0 1.6E-29 3.5E-34 207.3 11.7 155 58-213 3-190 (241)
3 TIGR02716 C20_methyl_CrtF C-20 99.9 1.1E-26 2.3E-31 196.9 13.9 201 2-213 2-247 (306)
4 PF08100 Dimerisation: Dimeris 98.3 4.9E-07 1.1E-11 55.9 2.3 35 5-39 1-51 (51)
5 PRK06922 hypothetical protein; 97.8 7E-05 1.5E-09 69.1 8.5 114 100-213 378-530 (677)
6 TIGR00740 methyltransferase, p 97.6 0.00028 6.1E-09 57.6 8.0 83 131-213 53-154 (239)
7 PF12847 Methyltransf_18: Meth 97.5 0.00025 5.4E-09 50.5 5.2 81 133-213 3-104 (112)
8 PLN03075 nicotianamine synthas 97.4 0.00056 1.2E-08 57.7 7.7 82 131-213 123-226 (296)
9 PRK15451 tRNA cmo(5)U34 methyl 97.3 0.0008 1.7E-08 55.3 7.3 83 131-213 56-157 (247)
10 PF13649 Methyltransf_25: Meth 97.1 0.00062 1.3E-08 47.9 3.9 79 135-213 1-100 (101)
11 PTZ00098 phosphoethanolamine N 97.0 0.0024 5.3E-08 53.1 7.0 82 132-213 53-149 (263)
12 PF08242 Methyltransf_12: Meth 96.9 0.00049 1.1E-08 48.0 1.8 76 136-213 1-96 (99)
13 PF08241 Methyltransf_11: Meth 96.9 0.0037 8E-08 42.5 5.8 75 136-213 1-90 (95)
14 PRK14103 trans-aconitate 2-met 96.9 0.0075 1.6E-07 49.7 8.7 78 132-213 30-119 (255)
15 TIGR03587 Pse_Me-ase pseudamin 96.7 0.0061 1.3E-07 48.8 6.8 79 133-211 45-135 (204)
16 PRK01683 trans-aconitate 2-met 96.7 0.0067 1.5E-07 49.9 7.1 80 132-213 32-123 (258)
17 TIGR03438 probable methyltrans 96.6 0.012 2.6E-07 49.9 8.6 81 133-213 65-170 (301)
18 smart00138 MeTrc Methyltransfe 96.6 0.0031 6.7E-08 52.5 4.4 48 166-213 185-235 (264)
19 PF05401 NodS: Nodulation prot 96.6 0.005 1.1E-07 48.8 5.2 80 134-213 46-139 (201)
20 PF13847 Methyltransf_31: Meth 96.3 0.016 3.4E-07 43.8 6.6 80 132-213 4-103 (152)
21 PRK11036 putative S-adenosyl-L 96.3 0.0089 1.9E-07 49.3 5.6 80 132-213 45-142 (255)
22 PLN02490 MPBQ/MSBQ methyltrans 96.3 0.011 2.3E-07 51.1 6.1 80 132-213 114-208 (340)
23 PRK11207 tellurite resistance 96.3 0.019 4E-07 45.6 7.1 81 133-213 32-127 (197)
24 COG2226 UbiE Methylase involve 96.2 0.011 2.5E-07 48.3 5.7 79 133-213 53-149 (238)
25 PLN02233 ubiquinone biosynthes 96.1 0.026 5.5E-07 46.9 7.2 79 133-213 75-175 (261)
26 smart00828 PKS_MT Methyltransf 96.0 0.026 5.6E-07 45.3 6.7 78 134-213 2-97 (224)
27 TIGR01934 MenG_MenH_UbiE ubiqu 95.9 0.032 6.9E-07 44.4 7.1 80 132-213 40-136 (223)
28 PF01739 CheR: CheR methyltran 95.9 0.0062 1.4E-07 48.5 2.9 48 166-213 118-168 (196)
29 PRK10611 chemotaxis methyltran 95.7 0.013 2.8E-07 49.4 4.1 48 166-213 204-255 (287)
30 PRK15068 tRNA mo(5)U34 methylt 95.6 0.043 9.4E-07 47.0 6.9 79 133-213 124-219 (322)
31 PRK07580 Mg-protoporphyrin IX 95.6 0.043 9.4E-07 44.1 6.5 80 133-213 65-159 (230)
32 PRK00216 ubiE ubiquinone/menaq 95.5 0.059 1.3E-06 43.3 7.2 79 133-213 53-151 (239)
33 PRK08317 hypothetical protein; 95.5 0.067 1.4E-06 42.8 7.3 79 133-213 21-117 (241)
34 PF01209 Ubie_methyltran: ubiE 95.3 0.037 8E-07 45.2 5.4 79 133-213 49-146 (233)
35 TIGR02752 MenG_heptapren 2-hep 95.3 0.082 1.8E-06 42.6 7.3 79 133-213 47-144 (231)
36 PLN02336 phosphoethanolamine N 95.2 0.051 1.1E-06 48.9 6.4 81 133-213 39-135 (475)
37 TIGR02021 BchM-ChlM magnesium 95.1 0.13 2.8E-06 41.2 7.8 82 132-213 56-151 (219)
38 PLN02232 ubiquinone biosynthes 95.0 0.034 7.4E-07 42.6 4.0 46 166-213 26-74 (160)
39 PLN02244 tocopherol O-methyltr 94.9 0.13 2.8E-06 44.4 7.7 79 133-213 120-216 (340)
40 KOG1540 Ubiquinone biosynthesi 94.8 0.13 2.8E-06 42.5 7.0 79 133-213 102-207 (296)
41 PRK15001 SAM-dependent 23S rib 94.6 0.13 2.7E-06 45.2 7.1 81 133-213 230-333 (378)
42 TIGR00477 tehB tellurite resis 94.5 0.16 3.6E-06 40.1 7.0 81 133-213 32-126 (195)
43 PRK12335 tellurite resistance 94.4 0.16 3.5E-06 42.6 7.1 81 133-213 122-216 (287)
44 PRK11873 arsM arsenite S-adeno 94.3 0.19 4.1E-06 41.7 7.2 79 133-213 79-176 (272)
45 cd02440 AdoMet_MTases S-adenos 94.0 0.28 6E-06 32.8 6.5 48 165-213 46-97 (107)
46 PF08123 DOT1: Histone methyla 94.0 0.11 2.3E-06 41.7 5.0 46 165-213 100-151 (205)
47 PLN02336 phosphoethanolamine N 94.0 0.26 5.6E-06 44.4 7.9 79 133-213 268-362 (475)
48 TIGR02072 BioC biotin biosynth 93.9 0.2 4.2E-06 40.2 6.3 79 133-213 36-128 (240)
49 PF14947 HTH_45: Winged helix- 93.7 0.058 1.2E-06 36.2 2.4 42 20-71 25-66 (77)
50 PF09339 HTH_IclR: IclR helix- 93.1 0.023 5.1E-07 34.9 -0.3 28 20-47 24-51 (52)
51 PLN02396 hexaprenyldihydroxybe 93.1 0.15 3.3E-06 43.7 4.6 79 133-213 133-228 (322)
52 PF05891 Methyltransf_PK: AdoM 93.0 0.066 1.4E-06 43.1 2.2 31 183-213 124-154 (218)
53 TIGR03840 TMPT_Se_Te thiopurin 92.9 0.6 1.3E-05 37.6 7.6 48 166-213 94-145 (213)
54 TIGR00452 methyltransferase, p 92.5 0.46 9.9E-06 40.6 6.7 78 133-213 123-218 (314)
55 PRK08287 cobalt-precorrin-6Y C 92.3 0.55 1.2E-05 36.6 6.6 76 133-213 33-124 (187)
56 COG1352 CheR Methylase of chem 92.2 0.2 4.3E-06 41.8 4.1 48 166-213 184-234 (268)
57 PRK10258 biotin biosynthesis p 92.2 0.42 9.1E-06 39.1 6.0 79 133-213 44-133 (251)
58 PF05175 MTS: Methyltransferas 92.1 1.3 2.8E-05 34.1 8.4 83 131-213 31-133 (170)
59 TIGR00091 tRNA (guanine-N(7)-) 92.0 0.17 3.7E-06 39.9 3.3 82 131-213 16-125 (194)
60 TIGR03534 RF_mod_PrmC protein- 91.9 0.86 1.9E-05 36.9 7.5 81 133-213 89-210 (251)
61 PLN02366 spermidine synthase 91.8 0.9 2E-05 38.7 7.6 80 132-213 92-199 (308)
62 PRK13255 thiopurine S-methyltr 91.7 0.9 1.9E-05 36.7 7.3 49 165-213 96-148 (218)
63 COG1414 IclR Transcriptional r 91.6 0.12 2.6E-06 42.6 2.1 43 20-70 25-67 (246)
64 PRK11805 N5-glutamine S-adenos 91.4 0.65 1.4E-05 39.5 6.5 81 133-213 135-256 (307)
65 smart00346 HTH_ICLR helix_turn 91.2 0.14 2.9E-06 35.0 1.8 40 20-67 26-65 (91)
66 TIGR02431 pcaR_pcaU beta-ketoa 90.7 0.13 2.9E-06 42.1 1.6 41 20-70 30-70 (248)
67 PRK14121 tRNA (guanine-N(7)-)- 90.7 0.94 2E-05 39.9 6.9 80 133-213 124-228 (390)
68 PRK06202 hypothetical protein; 90.4 1.3 2.8E-05 35.7 7.1 81 132-212 61-160 (232)
69 smart00419 HTH_CRP helix_turn_ 90.3 0.19 4.1E-06 29.7 1.6 28 20-47 14-41 (48)
70 PRK09489 rsmC 16S ribosomal RN 90.3 1.3 2.8E-05 38.3 7.4 81 133-213 198-296 (342)
71 cd00092 HTH_CRP helix_turn_hel 90.0 0.2 4.3E-06 31.9 1.6 37 20-65 31-67 (67)
72 TIGR02469 CbiT precorrin-6Y C5 89.9 2.3 4.9E-05 30.1 7.4 76 133-213 21-115 (124)
73 PRK10163 DNA-binding transcrip 89.8 0.21 4.5E-06 41.7 2.0 42 20-69 46-87 (271)
74 PRK15090 DNA-binding transcrip 89.8 0.2 4.2E-06 41.4 1.8 43 20-70 34-76 (257)
75 PF04672 Methyltransf_19: S-ad 89.8 0.71 1.5E-05 38.5 5.1 83 131-213 68-183 (267)
76 TIGR03533 L3_gln_methyl protei 89.5 1.4 3E-05 37.0 6.8 82 132-213 122-244 (284)
77 PRK05785 hypothetical protein; 89.3 1.1 2.4E-05 36.3 5.9 77 132-213 52-140 (226)
78 PRK11569 transcriptional repre 89.1 0.2 4.4E-06 41.8 1.4 43 20-70 49-91 (274)
79 PRK04457 spermidine synthase; 89.1 1.2 2.5E-05 37.1 6.0 80 133-213 68-170 (262)
80 PF12147 Methyltransf_20: Puta 89.1 2.2 4.8E-05 36.1 7.5 80 134-213 138-242 (311)
81 PLN02585 magnesium protoporphy 89.1 1 2.2E-05 38.5 5.8 76 133-209 146-240 (315)
82 TIGR00138 gidB 16S rRNA methyl 88.8 1.3 2.9E-05 34.6 5.8 76 132-213 43-135 (181)
83 PRK09834 DNA-binding transcrip 88.4 0.26 5.7E-06 40.9 1.6 44 20-71 32-75 (263)
84 PRK13256 thiopurine S-methyltr 87.8 4.8 0.0001 32.8 8.6 49 165-213 102-156 (226)
85 PRK00121 trmB tRNA (guanine-N( 87.7 0.95 2E-05 35.9 4.4 81 132-213 41-149 (202)
86 PF03291 Pox_MCEL: mRNA cappin 87.1 2.4 5.3E-05 36.5 6.8 104 110-213 36-179 (331)
87 COG4106 Tam Trans-aconitate me 87.1 1.3 2.9E-05 35.9 4.8 79 133-213 32-122 (257)
88 PRK11088 rrmA 23S rRNA methylt 85.9 1.7 3.7E-05 36.1 5.2 72 133-213 87-174 (272)
89 PF13463 HTH_27: Winged helix 85.8 0.57 1.2E-05 29.9 1.8 44 20-66 24-67 (68)
90 PRK00811 spermidine synthase; 85.7 3.6 7.7E-05 34.6 7.1 82 132-213 77-184 (283)
91 TIGR00537 hemK_rel_arch HemK-r 85.6 3.5 7.6E-05 31.8 6.5 81 133-213 21-133 (179)
92 PF13489 Methyltransf_23: Meth 85.5 1.4 3E-05 32.7 4.1 30 182-213 79-108 (161)
93 PRK09328 N5-glutamine S-adenos 85.4 2.2 4.8E-05 35.1 5.7 81 133-213 110-231 (275)
94 PRK00107 gidB 16S rRNA methylt 85.1 6.7 0.00014 30.8 7.9 75 133-213 47-138 (187)
95 smart00529 HTH_DTXR Helix-turn 85.0 0.54 1.2E-05 32.3 1.5 43 20-71 5-47 (96)
96 PF06080 DUF938: Protein of un 84.8 5 0.00011 32.1 7.1 80 134-213 28-134 (204)
97 PF01978 TrmB: Sugar-specific 84.7 0.45 9.8E-06 30.7 0.9 28 20-47 28-55 (68)
98 PF02082 Rrf2: Transcriptional 84.6 0.5 1.1E-05 31.9 1.2 40 20-66 31-70 (83)
99 COG3315 O-Methyltransferase in 83.8 2.5 5.5E-05 35.8 5.3 90 124-213 85-202 (297)
100 TIGR01983 UbiG ubiquinone bios 83.6 3.9 8.5E-05 32.5 6.2 80 132-213 46-142 (224)
101 PRK01581 speE spermidine synth 82.9 4.9 0.00011 35.2 6.8 80 133-213 152-261 (374)
102 smart00550 Zalpha Z-DNA-bindin 82.6 0.89 1.9E-05 29.6 1.7 39 20-65 28-66 (68)
103 PF14394 DUF4423: Domain of un 82.3 1.5 3.2E-05 34.1 3.1 59 2-69 24-87 (171)
104 PF13601 HTH_34: Winged helix 82.1 0.96 2.1E-05 30.5 1.8 57 12-70 2-68 (80)
105 TIGR02081 metW methionine bios 81.6 3.6 7.7E-05 32.2 5.1 77 133-213 15-105 (194)
106 COG3432 Predicted transcriptio 80.7 2.1 4.5E-05 29.9 3.0 47 20-72 37-83 (95)
107 TIGR00536 hemK_fam HemK family 80.7 7 0.00015 32.7 6.9 81 133-213 116-237 (284)
108 KOG1975 mRNA cap methyltransfe 80.6 7 0.00015 33.7 6.6 47 167-213 173-230 (389)
109 TIGR03439 methyl_EasF probable 80.5 2.3 4.9E-05 36.5 3.9 49 165-213 129-190 (319)
110 PF13412 HTH_24: Winged helix- 80.2 0.63 1.4E-05 27.7 0.3 26 20-45 23-48 (48)
111 COG1959 Predicted transcriptio 79.7 1.6 3.5E-05 33.1 2.5 56 5-67 9-71 (150)
112 COG5459 Predicted rRNA methyla 79.3 1.6 3.5E-05 37.9 2.5 80 134-213 116-218 (484)
113 KOG2361 Predicted methyltransf 77.3 5.8 0.00013 32.7 5.0 80 134-213 74-176 (264)
114 TIGR00417 speE spermidine synt 76.9 12 0.00026 31.1 7.1 81 133-213 74-179 (270)
115 TIGR01610 phage_O_Nterm phage 76.6 1.7 3.6E-05 30.2 1.6 28 20-47 53-80 (95)
116 PRK03612 spermidine synthase; 76.3 9 0.0002 35.1 6.7 79 133-213 299-408 (521)
117 PF04967 HTH_10: HTH DNA bindi 76.1 1.5 3.3E-05 27.1 1.2 36 4-39 6-48 (53)
118 smart00347 HTH_MARR helix_turn 75.3 1.8 4E-05 29.4 1.6 49 20-71 30-78 (101)
119 PRK11014 transcriptional repre 75.3 2.8 6.1E-05 31.2 2.6 43 5-47 9-58 (141)
120 TIGR02010 IscR iron-sulfur clu 75.2 2.2 4.8E-05 31.5 2.1 39 20-65 31-69 (135)
121 PRK14968 putative methyltransf 75.2 14 0.0003 28.2 6.7 81 133-213 25-141 (188)
122 PRK11705 cyclopropane fatty ac 74.0 14 0.00029 32.6 7.0 80 133-213 169-260 (383)
123 PRK05134 bifunctional 3-demeth 73.9 9.4 0.0002 30.5 5.6 79 133-213 50-144 (233)
124 PRK07402 precorrin-6B methylas 73.8 13 0.00028 29.0 6.3 75 133-213 42-135 (196)
125 TIGR00738 rrf2_super rrf2 fami 73.4 2 4.3E-05 31.4 1.4 28 20-47 31-58 (132)
126 PF03848 TehB: Tellurite resis 73.2 9.2 0.0002 30.3 5.2 81 133-213 32-126 (192)
127 PRK11188 rrmJ 23S rRNA methylt 73.1 8.7 0.00019 30.6 5.2 81 133-213 53-158 (209)
128 PRK10857 DNA-binding transcrip 72.3 2.8 6E-05 32.4 2.0 39 20-65 31-69 (164)
129 PRK04266 fibrillarin; Provisio 72.2 20 0.00043 29.1 7.1 76 133-213 74-169 (226)
130 COG2242 CobL Precorrin-6B meth 72.0 14 0.00031 29.1 5.9 76 132-213 35-128 (187)
131 PRK03902 manganese transport t 71.7 2.8 6E-05 31.2 1.9 43 20-71 28-70 (142)
132 PF10007 DUF2250: Uncharacteri 71.6 2.5 5.5E-05 29.3 1.5 28 20-47 27-54 (92)
133 TIGR00080 pimt protein-L-isoas 70.0 15 0.00033 29.2 5.9 74 132-213 78-170 (215)
134 TIGR02337 HpaR homoprotocatech 69.8 3.6 7.8E-05 29.5 2.1 51 20-73 48-98 (118)
135 TIGR02702 SufR_cyano iron-sulf 69.6 4.5 9.7E-05 32.1 2.7 52 20-72 21-72 (203)
136 PF12840 HTH_20: Helix-turn-he 69.1 2.1 4.4E-05 27.0 0.6 44 4-47 4-57 (61)
137 PF12802 MarR_2: MarR family; 67.6 1.9 4.2E-05 26.8 0.2 29 20-48 27-55 (62)
138 PF05185 PRMT5: PRMT5 arginine 67.3 19 0.00041 32.5 6.5 112 100-213 151-290 (448)
139 PRK13942 protein-L-isoaspartat 67.2 21 0.00045 28.4 6.2 41 165-213 126-169 (212)
140 PF09012 FeoC: FeoC like trans 66.8 3.5 7.6E-05 26.7 1.3 28 20-47 20-47 (69)
141 PF04182 B-block_TFIIIC: B-blo 66.5 3.1 6.8E-05 27.5 1.1 28 20-47 24-51 (75)
142 TIGR02944 suf_reg_Xantho FeS a 66.1 3.3 7.2E-05 30.3 1.2 28 20-47 31-58 (130)
143 PF01638 HxlR: HxlR-like helix 65.8 7.3 0.00016 26.6 2.9 49 20-71 24-73 (90)
144 PF09821 AAA_assoc_C: C-termin 65.8 4.7 0.0001 29.4 1.9 45 20-74 3-47 (120)
145 PF02353 CMAS: Mycolic acid cy 65.5 17 0.00037 30.4 5.6 81 132-213 63-159 (273)
146 PF05724 TPMT: Thiopurine S-me 65.4 6.2 0.00013 31.8 2.8 49 165-213 96-148 (218)
147 PF01022 HTH_5: Bacterial regu 65.1 2.6 5.7E-05 25.0 0.4 26 20-45 21-46 (47)
148 PRK01544 bifunctional N5-gluta 65.0 20 0.00044 32.7 6.3 81 133-213 140-262 (506)
149 smart00345 HTH_GNTR helix_turn 64.8 4.1 8.8E-05 24.8 1.3 28 20-47 26-53 (60)
150 PRK13944 protein-L-isoaspartat 64.7 20 0.00043 28.3 5.6 73 133-213 74-166 (205)
151 COG1321 TroR Mn-dependent tran 64.3 3.9 8.4E-05 31.2 1.3 45 20-73 30-74 (154)
152 PRK11920 rirA iron-responsive 64.2 4.7 0.0001 30.6 1.8 40 20-66 30-69 (153)
153 cd00090 HTH_ARSR Arsenical Res 63.3 4.7 0.0001 25.4 1.5 28 20-47 26-53 (78)
154 smart00344 HTH_ASNC helix_turn 63.3 4.4 9.6E-05 28.4 1.4 27 20-46 23-49 (108)
155 TIGR00027 mthyl_TIGR00027 meth 63.2 44 0.00095 27.7 7.6 89 125-213 75-190 (260)
156 COG4301 Uncharacterized conser 62.9 8.1 0.00018 32.1 3.0 47 167-213 134-186 (321)
157 PF03428 RP-C: Replication pro 62.9 4.1 8.9E-05 31.9 1.3 28 20-47 76-104 (177)
158 PF08003 Methyltransf_9: Prote 61.5 27 0.00058 29.9 5.9 78 133-213 117-212 (315)
159 PRK14165 winged helix-turn-hel 61.1 6.5 0.00014 31.8 2.2 46 20-71 27-72 (217)
160 TIGR02147 Fsuc_second hypothet 60.3 10 0.00023 31.7 3.3 58 2-68 122-184 (271)
161 PF09445 Methyltransf_15: RNA 60.1 5.8 0.00013 30.6 1.7 55 134-188 2-76 (163)
162 PF01047 MarR: MarR family; I 60.0 3.4 7.3E-05 25.5 0.3 29 20-48 23-51 (59)
163 cd07377 WHTH_GntR Winged helix 59.8 6.7 0.00014 24.3 1.7 28 20-47 31-58 (66)
164 COG3355 Predicted transcriptio 59.8 6.8 0.00015 28.9 1.9 29 20-48 48-76 (126)
165 PF08220 HTH_DeoR: DeoR-like h 59.2 8.7 0.00019 23.9 2.1 28 20-47 20-47 (57)
166 PRK11050 manganese transport r 59.1 5.5 0.00012 30.2 1.4 43 20-71 57-99 (152)
167 PF13730 HTH_36: Helix-turn-he 58.9 4 8.7E-05 24.8 0.5 25 20-44 31-55 (55)
168 PF01726 LexA_DNA_bind: LexA D 58.6 4.9 0.00011 25.9 0.9 35 13-47 22-59 (65)
169 PRK00312 pcm protein-L-isoaspa 58.2 39 0.00085 26.6 6.3 40 166-213 126-168 (212)
170 PRK00377 cbiT cobalt-precorrin 58.2 32 0.00069 26.9 5.7 76 133-213 42-138 (198)
171 COG1733 Predicted transcriptio 58.0 25 0.00054 25.6 4.6 49 20-71 42-91 (120)
172 PF03444 HrcA_DNA-bdg: Winged 57.9 5.1 0.00011 26.9 0.9 27 20-46 29-55 (78)
173 smart00418 HTH_ARSR helix_turn 57.8 7.7 0.00017 23.6 1.7 28 20-47 16-43 (66)
174 PF07381 DUF1495: Winged helix 57.0 11 0.00024 26.1 2.4 56 9-70 8-86 (90)
175 PRK10141 DNA-binding transcrip 56.8 7.7 0.00017 28.2 1.7 43 5-47 11-63 (117)
176 PF02002 TFIIE_alpha: TFIIE al 55.6 6.2 0.00013 27.7 1.1 28 20-47 33-60 (105)
177 PRK11512 DNA-binding transcrip 55.4 8.1 0.00018 28.7 1.8 49 20-71 60-108 (144)
178 TIGR01884 cas_HTH CRISPR locus 55.3 8.6 0.00019 30.5 2.0 40 20-66 163-202 (203)
179 PF11899 DUF3419: Protein of u 55.0 23 0.00049 31.2 4.7 59 156-214 265-328 (380)
180 COG4565 CitB Response regulato 54.3 13 0.00029 30.0 2.8 28 20-47 179-206 (224)
181 smart00420 HTH_DEOR helix_turn 53.7 17 0.00037 21.2 2.7 28 20-47 20-47 (53)
182 PF04703 FaeA: FaeA-like prote 53.2 7.8 0.00017 24.8 1.1 28 20-47 21-48 (62)
183 PF02390 Methyltransf_4: Putat 53.0 38 0.00083 26.7 5.3 54 124-177 10-78 (195)
184 KOG1500 Protein arginine N-met 52.4 48 0.0011 28.9 6.0 22 165-186 225-248 (517)
185 TIGR00122 birA_repr_reg BirA b 52.3 9.7 0.00021 24.4 1.5 28 20-47 19-46 (69)
186 COG2227 UbiG 2-polyprenyl-3-me 51.5 24 0.00052 29.0 3.9 79 133-213 61-154 (243)
187 TIGR00498 lexA SOS regulatory 51.4 9 0.00019 30.1 1.5 28 20-47 31-59 (199)
188 KOG2899 Predicted methyltransf 51.4 67 0.0014 26.8 6.4 46 168-213 152-202 (288)
189 PRK09334 30S ribosomal protein 51.2 10 0.00022 26.0 1.5 28 20-47 47-74 (86)
190 PF00325 Crp: Bacterial regula 50.5 4.6 0.0001 22.2 -0.2 25 20-44 8-32 (32)
191 TIGR03433 padR_acidobact trans 50.5 21 0.00046 24.8 3.1 52 21-73 32-83 (100)
192 PTZ00146 fibrillarin; Provisio 50.4 80 0.0017 26.8 7.1 76 133-213 134-230 (293)
193 PF00891 Methyltransf_2: O-met 49.4 9.1 0.0002 30.9 1.3 42 122-164 41-82 (241)
194 PRK03573 transcriptional regul 49.1 12 0.00026 27.7 1.8 50 20-72 52-101 (144)
195 PF13545 HTH_Crp_2: Crp-like h 49.1 7.7 0.00017 25.1 0.7 28 20-47 34-61 (76)
196 PF05732 RepL: Firmicute plasm 48.0 13 0.00028 28.7 1.9 39 20-67 81-119 (165)
197 TIGR00373 conserved hypothetic 47.4 10 0.00022 29.0 1.2 28 20-47 34-61 (158)
198 PRK13824 replication initiatio 46.6 13 0.00028 33.1 1.8 29 20-48 88-117 (404)
199 smart00650 rADc Ribosomal RNA 45.7 76 0.0017 24.0 5.9 73 132-204 14-99 (169)
200 PRK06266 transcription initiat 45.5 12 0.00026 29.2 1.3 28 20-47 42-69 (178)
201 TIGR00438 rrmJ cell division p 45.3 49 0.0011 25.5 4.8 81 132-213 33-139 (188)
202 COG1378 Predicted transcriptio 45.2 31 0.00068 28.4 3.8 58 6-70 21-79 (247)
203 PF13659 Methyltransf_26: Meth 44.5 32 0.00069 23.9 3.4 80 134-213 3-108 (117)
204 PF09382 RQC: RQC domain; Int 44.2 27 0.00058 24.2 2.9 45 25-74 53-97 (106)
205 PHA00738 putative HTH transcri 44.2 26 0.00056 25.1 2.7 29 20-48 32-60 (108)
206 PF03551 PadR: Transcriptional 44.0 30 0.00065 22.4 2.9 46 23-69 26-71 (75)
207 PF00126 HTH_1: Bacterial regu 43.8 16 0.00034 22.7 1.5 38 20-67 19-59 (60)
208 COG2512 Predicted membrane-ass 43.0 18 0.0004 30.0 2.1 29 20-48 216-244 (258)
209 PRK11179 DNA-binding transcrip 42.8 14 0.0003 27.8 1.3 36 11-46 10-55 (153)
210 cd07153 Fur_like Ferric uptake 42.0 44 0.00094 23.5 3.8 25 24-48 31-55 (116)
211 PRK14904 16S rRNA methyltransf 42.0 1.2E+02 0.0027 27.0 7.4 48 166-213 301-370 (445)
212 PLN02823 spermine synthase 41.9 82 0.0018 27.2 6.0 80 133-213 105-213 (336)
213 COG1846 MarR Transcriptional r 41.6 15 0.00033 25.6 1.3 51 20-73 42-92 (126)
214 PF04492 Phage_rep_O: Bacterio 41.3 24 0.00051 24.9 2.2 28 20-47 60-87 (100)
215 PRK11169 leucine-responsive tr 41.0 14 0.00031 28.1 1.1 37 10-46 14-60 (164)
216 COG1522 Lrp Transcriptional re 40.9 17 0.00036 27.0 1.5 37 11-47 9-55 (154)
217 COG4901 Ribosomal protein S25 40.4 16 0.00035 25.8 1.2 28 20-47 65-92 (107)
218 PF00392 GntR: Bacterial regul 40.4 11 0.00024 23.7 0.4 28 20-47 30-57 (64)
219 PF01325 Fe_dep_repress: Iron 40.3 10 0.00023 23.9 0.2 28 20-47 28-55 (60)
220 TIGR01177 conserved hypothetic 40.1 1.2E+02 0.0026 25.8 6.8 47 167-213 231-287 (329)
221 PRK04172 pheS phenylalanyl-tRN 40.0 22 0.00048 32.3 2.4 61 6-73 11-72 (489)
222 PF14338 Mrr_N: Mrr N-terminal 39.9 15 0.00033 25.1 1.1 36 31-75 57-92 (92)
223 PRK10870 transcriptional repre 39.7 17 0.00036 28.2 1.3 51 20-73 77-127 (176)
224 COG0735 Fur Fe2+/Zn2+ uptake r 39.7 42 0.00092 25.1 3.5 29 20-48 47-75 (145)
225 PF08672 APC2: Anaphase promot 38.0 41 0.00089 21.3 2.7 33 21-63 28-60 (60)
226 TIGR00755 ksgA dimethyladenosi 38.0 71 0.0015 26.0 4.9 71 133-203 31-115 (253)
227 PRK00274 ksgA 16S ribosomal RN 37.0 77 0.0017 26.2 5.0 45 133-177 44-98 (272)
228 PLN02781 Probable caffeoyl-CoA 36.6 1E+02 0.0022 24.9 5.6 78 131-213 68-171 (234)
229 COG0220 Predicted S-adenosylme 36.5 58 0.0013 26.5 4.1 22 133-154 50-73 (227)
230 PRK04214 rbn ribonuclease BN/u 36.5 27 0.00059 31.0 2.3 28 20-47 316-343 (412)
231 PHA03411 putative methyltransf 36.2 96 0.0021 26.2 5.4 57 133-189 66-134 (279)
232 PF03297 Ribosomal_S25: S25 ri 35.8 15 0.00033 26.1 0.5 28 20-47 65-92 (105)
233 KOG1271 Methyltransferases [Ge 35.0 82 0.0018 25.1 4.4 46 133-178 69-130 (227)
234 PRK14967 putative methyltransf 35.0 1.4E+02 0.0031 23.6 6.2 81 133-213 38-152 (223)
235 TIGR00406 prmA ribosomal prote 34.1 2.6E+02 0.0057 23.2 7.9 77 132-213 160-252 (288)
236 PRK09462 fur ferric uptake reg 34.0 63 0.0014 24.0 3.7 25 23-47 47-71 (148)
237 PRK14896 ksgA 16S ribosomal RN 33.9 1.4E+02 0.0031 24.4 6.1 71 133-204 31-113 (258)
238 PF09243 Rsm22: Mitochondrial 33.8 1.2E+02 0.0025 25.3 5.6 79 133-211 35-132 (274)
239 COG1675 TFA1 Transcription ini 33.1 29 0.00063 27.1 1.7 28 20-47 38-65 (176)
240 PF07848 PaaX: PaaX-like prote 31.9 68 0.0015 20.9 3.1 41 20-66 29-69 (70)
241 PF02981 FokI_N: Restriction e 31.9 28 0.00061 26.2 1.4 35 30-72 108-142 (145)
242 PRK00536 speE spermidine synth 31.7 1E+02 0.0022 25.7 4.8 70 134-213 75-164 (262)
243 PRK06474 hypothetical protein; 31.6 43 0.00093 26.1 2.5 50 20-70 32-82 (178)
244 COG2890 HemK Methylase of poly 31.6 66 0.0014 26.9 3.8 52 134-185 113-180 (280)
245 COG4190 Predicted transcriptio 31.2 27 0.00059 26.0 1.2 28 20-47 84-111 (144)
246 PF05219 DREV: DREV methyltran 30.6 71 0.0015 26.7 3.7 79 133-213 96-181 (265)
247 COG4189 Predicted transcriptio 30.2 46 0.001 27.4 2.4 44 4-47 17-70 (308)
248 PF11968 DUF3321: Putative met 29.5 75 0.0016 25.8 3.5 76 134-213 54-137 (219)
249 PRK14966 unknown domain/N5-glu 29.4 2E+02 0.0043 25.9 6.5 55 133-187 253-325 (423)
250 TIGR02719 repress_PhaQ poly-be 29.2 67 0.0015 24.0 3.0 48 24-72 53-100 (138)
251 PTZ00326 phenylalanyl-tRNA syn 29.2 58 0.0012 29.8 3.1 54 14-74 20-74 (494)
252 PRK00215 LexA repressor; Valid 29.0 31 0.00067 27.1 1.3 28 20-47 29-57 (205)
253 PRK05638 threonine synthase; V 29.0 30 0.00064 31.0 1.3 47 20-71 390-438 (442)
254 KOG3010 Methyltransferase [Gen 29.0 1.9E+02 0.0041 24.0 5.8 77 130-206 32-125 (261)
255 PF00398 RrnaAD: Ribosomal RNA 28.8 1.4E+02 0.003 24.6 5.2 66 131-196 30-111 (262)
256 PRK10402 DNA-binding transcrip 28.8 36 0.00077 27.1 1.6 28 20-47 175-202 (226)
257 PRK05473 hypothetical protein; 28.4 60 0.0013 22.2 2.4 24 191-214 12-36 (86)
258 PF08461 HTH_12: Ribonuclease 28.4 54 0.0012 21.0 2.1 23 25-47 29-51 (66)
259 PF01475 FUR: Ferric uptake re 28.4 66 0.0014 22.8 2.9 27 22-48 36-62 (120)
260 COG0421 SpeE Spermidine syntha 28.3 72 0.0016 26.9 3.4 77 134-213 79-183 (282)
261 PF09202 Rio2_N: Rio2, N-termi 28.3 26 0.00057 23.7 0.6 54 8-68 12-71 (82)
262 PRK11161 fumarate/nitrate redu 28.0 39 0.00084 26.9 1.7 28 20-47 190-217 (235)
263 KOG3924 Putative protein methy 27.7 1.6E+02 0.0035 26.2 5.5 46 165-213 250-301 (419)
264 PLN02853 Probable phenylalanyl 27.1 61 0.0013 29.6 2.9 62 5-73 7-70 (492)
265 PF08784 RPA_C: Replication pr 27.1 30 0.00065 24.0 0.8 28 20-47 71-98 (102)
266 PF08820 DUF1803: Domain of un 26.8 57 0.0012 22.7 2.1 30 26-65 39-68 (93)
267 PF02319 E2F_TDP: E2F/DP famil 26.6 32 0.00069 22.4 0.8 28 20-47 30-62 (71)
268 PRK14902 16S rRNA methyltransf 26.4 3.3E+02 0.0071 24.3 7.5 81 133-213 252-372 (444)
269 COG2813 RsmC 16S RNA G1207 met 26.3 3.3E+02 0.0072 23.2 7.0 80 134-213 161-259 (300)
270 KOG2165 Anaphase-promoting com 26.0 40 0.00087 32.0 1.6 41 20-65 622-662 (765)
271 PF06163 DUF977: Bacterial pro 26.0 58 0.0013 24.0 2.1 41 7-47 9-59 (127)
272 PF06969 HemN_C: HemN C-termin 25.9 87 0.0019 19.5 2.8 39 20-68 26-65 (66)
273 TIGR00446 nop2p NOL1/NOP2/sun 25.5 3.6E+02 0.0077 22.1 7.1 48 166-213 122-192 (264)
274 PF12793 SgrR_N: Sugar transpo 25.2 41 0.0009 24.2 1.3 28 20-47 25-52 (115)
275 cd07922 CarBa CarBa is the A s 25.1 45 0.00097 22.6 1.3 55 101-156 9-75 (81)
276 PF01564 Spermine_synth: Sperm 24.9 1.6E+02 0.0035 24.1 4.9 81 133-213 78-184 (246)
277 COG4742 Predicted transcriptio 24.5 57 0.0012 27.2 2.1 44 20-73 32-75 (260)
278 PRK11639 zinc uptake transcrip 24.5 77 0.0017 24.3 2.8 26 22-47 54-79 (169)
279 TIGR01889 Staph_reg_Sar staphy 24.4 37 0.00081 23.8 0.9 49 20-71 49-97 (109)
280 PRK13943 protein-L-isoaspartat 24.3 1.8E+02 0.0039 25.0 5.2 62 133-194 82-162 (322)
281 PRK09391 fixK transcriptional 24.2 41 0.0009 26.9 1.2 28 20-47 185-212 (230)
282 TIGR03697 NtcA_cyano global ni 24.1 38 0.00081 25.9 0.9 28 20-47 149-176 (193)
283 COG2524 Predicted transcriptio 24.0 47 0.001 27.7 1.5 43 20-69 31-73 (294)
284 PRK04148 hypothetical protein; 23.9 1.1E+02 0.0024 22.7 3.4 70 133-210 18-101 (134)
285 PRK09416 lstR lineage-specific 23.9 79 0.0017 23.6 2.5 42 25-71 74-115 (135)
286 TIGR02787 codY_Gpos GTP-sensin 23.1 46 0.00099 27.5 1.3 28 20-47 204-231 (251)
287 PRK13509 transcriptional repre 22.9 50 0.0011 27.1 1.5 28 20-47 25-52 (251)
288 KOG1709 Guanidinoacetate methy 22.5 3.3E+02 0.0071 22.5 5.9 87 124-213 94-199 (271)
289 PF13814 Replic_Relax: Replica 22.5 49 0.0011 25.4 1.3 53 20-72 15-71 (191)
290 PTZ00338 dimethyladenosine tra 22.4 1.8E+02 0.0039 24.5 4.8 71 133-204 38-123 (294)
291 PRK15431 ferrous iron transpor 22.2 59 0.0013 21.8 1.5 29 20-48 22-50 (78)
292 PRK13918 CRP/FNR family transc 22.2 49 0.0011 25.5 1.3 28 20-47 155-182 (202)
293 PRK10906 DNA-binding transcrip 21.8 64 0.0014 26.5 1.9 28 20-47 25-52 (252)
294 PRK13777 transcriptional regul 21.7 69 0.0015 25.2 2.0 50 20-72 65-114 (185)
295 COG4076 Predicted RNA methylas 21.6 2.2E+02 0.0048 22.9 4.7 78 133-210 34-125 (252)
296 PF07120 DUF1376: Protein of u 21.5 39 0.00085 22.9 0.5 40 20-70 46-85 (88)
297 smart00531 TFIIE Transcription 21.5 47 0.001 24.9 1.0 24 20-43 21-44 (147)
298 COG1725 Predicted transcriptio 21.3 65 0.0014 23.7 1.7 28 20-47 41-68 (125)
299 TIGR03704 PrmC_rel_meth putati 21.0 2.1E+02 0.0046 23.3 4.9 55 133-187 88-159 (251)
300 PF07574 SMC_Nse1: Nse1 non-SM 20.8 91 0.002 24.6 2.5 35 24-67 162-196 (200)
301 KOG1270 Methyltransferases [Co 20.7 1.6E+02 0.0034 24.8 3.9 45 167-213 144-188 (282)
302 COG2345 Predicted transcriptio 20.5 97 0.0021 25.1 2.6 50 20-72 31-82 (218)
303 PF07021 MetW: Methionine bios 20.4 1.7E+02 0.0038 23.2 4.0 69 124-196 7-90 (193)
304 COG3682 Predicted transcriptio 20.2 1E+02 0.0022 22.6 2.5 39 20-66 30-68 (123)
305 PRK09802 DNA-binding transcrip 20.0 64 0.0014 26.8 1.6 28 20-47 37-64 (269)
No 1
>KOG3178 consensus Hydroxyindole-O-methyltransferase and related SAM-dependent methyltransferases [General function prediction only]
Probab=99.98 E-value=8.3e-32 Score=225.53 Aligned_cols=205 Identities=36% Similarity=0.648 Sum_probs=159.6
Q ss_pred hhhHHHHHHHHhCchhHH-----------cCC--CCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhcc
Q 042599 2 VLPMTMKTAIQLGVLEIM-----------LPK--NNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSR 68 (214)
Q Consensus 2 ~~~~~L~~a~~lgifd~L-----------LA~--~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~ 68 (214)
..+++|++|+||||||+| ++. +.+.++..+.|+||.|++.+++++... + .. .|+++|+++
T Consensus 18 ~~~~~lk~A~eL~v~d~l~~~~~p~~ia~~l~~~~~~~~p~ll~r~lr~L~s~~i~k~~~~-----~-~~-~Y~~~~~~~ 90 (342)
T KOG3178|consen 18 ALPMVLKAACELGVFDILANAGSPSEIASLLPTPKNPEAPVLLDRILRLLVSYSILKCRLV-----G-GE-VYSATPVCK 90 (342)
T ss_pred hhHHHHHHHHHcChHHHHHhCCCHHHHHHhccCCCCCCChhHHHHHHHHHHHhhhceeeee-----c-ce-eeeccchhh
Confidence 468999999999999999 223 556899999999999999999998631 1 13 899999999
Q ss_pred ccCCCCCCCchhhHHhhhhchhhhhhhc--------------c--cCCcchhhhcchhhHhhHHhhhhhcc--HHHHHh-
Q 042599 69 YFFPNEDGVSLAPTLLIIQDKVNMDSWA--------------C--KYTQHSYLCMKDALLEGFINTLNRYY--LKNALL- 129 (214)
Q Consensus 69 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~--~~~~~~~~~~~p~~~~~f~~~m~~~~--~~~~~~- 129 (214)
.+..++.+.|+++++....++.....|. + +...|+|...++...+.|+++|.+.. +...+.
T Consensus 91 ~~l~~~~~~S~a~~~~~~~~~v~~~~w~~l~dai~eg~~~~~~~~G~~l~~~~~~~~~~~~~~~~sm~~l~~~~~~~il~ 170 (342)
T KOG3178|consen 91 YFLKDSGGGSLAPLVLLNTSKVIMNTWQFLKDAILEGGDAFATAHGMMLGGYGGADERFSKDFNGSMSFLSTLVMKKILE 170 (342)
T ss_pred hheecCCCCchhHHHHHhcccchhhhHHHHHHHHHhcccCCccccchhhhhhcccccccHHHHHHHHHHHHHHHHHhhhh
Confidence 8875554568888887655555554442 1 23578888888888888999986511 111121
Q ss_pred --cC---CCceEEccC--CccHHHHHHhCCC-------chHHHHhhccCCCceEEecCCCCcccCccceeeeehhccCCC
Q 042599 130 --EG---SVPHTKAQS--GMDAFAAAAKDAR-------MNNLFNQSMHNHTVVEHVSGHMFIEVPNGQALFMKWILSDWD 195 (214)
Q Consensus 130 --~g---~~~~~dvgG--G~~~~~~~~~~P~-------l~~v~~~~~~~~~rv~~~~gDff~~~P~~d~y~l~~ILHdw~ 195 (214)
+| ....+|+|| |...-.++.++|. ++.++..+....+.|+++.||||...|+||+|+|+||||||+
T Consensus 171 ~~~Gf~~v~~avDvGgGiG~v~k~ll~~fp~ik~infdlp~v~~~a~~~~~gV~~v~gdmfq~~P~~daI~mkWiLhdwt 250 (342)
T KOG3178|consen 171 VYTGFKGVNVAVDVGGGIGRVLKNLLSKYPHIKGINFDLPFVLAAAPYLAPGVEHVAGDMFQDTPKGDAIWMKWILHDWT 250 (342)
T ss_pred hhcccccCceEEEcCCcHhHHHHHHHHhCCCCceeecCHHHHHhhhhhhcCCcceecccccccCCCcCeEEEEeecccCC
Confidence 23 456899998 6677777778874 467777666542679999999997799999999999999999
Q ss_pred hHHHHHHHHHhHHhcCCC
Q 042599 196 DEECLKILKNCCVQCNTG 213 (214)
Q Consensus 196 d~~~~~IL~~~~~Al~pg 213 (214)
|++|++||+||+++|+||
T Consensus 251 DedcvkiLknC~~sL~~~ 268 (342)
T KOG3178|consen 251 DEDCVKILKNCKKSLPPG 268 (342)
T ss_pred hHHHHHHHHHHHHhCCCC
Confidence 999999999999999997
No 2
>PF00891 Methyltransf_2: O-methyltransferase; InterPro: IPR001077 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. This domain includes a range of O-methyltransferases some of which utilise S-adenosyl methionine as substrate []. In prokaryotes, the major role of DNA methylation is to protect host DNA against degradation by restriction enzymes. In eukaryotes, DNA methylation has been implicated in the control of several cellular processes, including differentiation, gene regulation, and embryonic development. O-methyltransferases have a common catalytic domain structure, which might be universal among S-adenosyl-L-methionine (AdoMet)-dependent methyltransferases []. Comparative analysis of the predicted amino acid sequences of a number of plant O-methyltransferase cDNA clones show that they share some 32-71% sequence identity, and can be grouped according to the different compounds they utilise as substrates [].; GO: 0008171 O-methyltransferase activity; PDB: 1FPQ_A 1FP1_D 3P9K_B 3P9I_D 3P9C_A 3I53_A 3I5U_A 3I64_A 3I58_A 1ZG3_A ....
Probab=99.96 E-value=1.6e-29 Score=207.27 Aligned_cols=155 Identities=23% Similarity=0.391 Sum_probs=121.0
Q ss_pred ccceecchhccccCCCCCCCchhhHHhhhhchhhhhhhcc----------------cCCcchhhhcchhhHhhHHhhhhh
Q 042599 58 QRLYGLASVSRYFFPNEDGVSLAPTLLIIQDKVNMDSWAC----------------KYTQHSYLCMKDALLEGFINTLNR 121 (214)
Q Consensus 58 ~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~~~~~p~~~~~f~~~m~~ 121 (214)
+++|+||++|+.|+.+++..++.+++.+...+..+.+|.. +.++|+|+.++|+..+.|+.+|..
T Consensus 3 ~~~y~~t~~s~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~v~~g~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m~~ 82 (241)
T PF00891_consen 3 GDRYSLTPLSELLLSDHSSPSMRGFVLFMISPELYPAWFRLTEAVRTGKPPFEKAFGTPFFEYLEEDPELAKRFNAAMAE 82 (241)
T ss_dssp TEEEEE-HHHHGGSTTTTTTHHHHHHHHHTCHHHHHGGGGHHHHHHHSS-HHHHHHSS-HHHHHHCSHHHHHHHHHHHHH
T ss_pred CCEEeChHHHHHHhCCCCcCcHHHHHHHhcCHHHHHHHHHHHhhhccCCCHHHHhcCCcHHHhhhhChHHHHHHHHHHHh
Confidence 7899999999999888764567776665445555555521 456899999999999999999976
Q ss_pred ccH--H-HHHh-----cCCCceEEccC--CccHHHHHHhCCCc-------hHHHHhhccCCCceEEecCCCCcccCccce
Q 042599 122 YYL--K-NALL-----EGSVPHTKAQS--GMDAFAAAAKDARM-------NNLFNQSMHNHTVVEHVSGHMFIEVPNGQA 184 (214)
Q Consensus 122 ~~~--~-~~~~-----~g~~~~~dvgG--G~~~~~~~~~~P~l-------~~v~~~~~~~~~rv~~~~gDff~~~P~~d~ 184 (214)
... . ..+. ++...++|||| |..+.++++++|++ |.|++.+.. .+||++++||||+++|.+|+
T Consensus 83 ~~~~~~~~~~~~~~d~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~~v~Dlp~v~~~~~~-~~rv~~~~gd~f~~~P~~D~ 161 (241)
T PF00891_consen 83 YSRLNAFDILLEAFDFSGFKTVVDVGGGSGHFAIALARAYPNLRATVFDLPEVIEQAKE-ADRVEFVPGDFFDPLPVADV 161 (241)
T ss_dssp HHHHHHHHHHHHHSTTTTSSEEEEET-TTSHHHHHHHHHSTTSEEEEEE-HHHHCCHHH-TTTEEEEES-TTTCCSSESE
T ss_pred hhhcchhhhhhccccccCccEEEeccCcchHHHHHHHHHCCCCcceeeccHhhhhcccc-ccccccccccHHhhhccccc
Confidence 211 1 1221 23356999998 77788999999976 677776666 78999999999999999999
Q ss_pred eeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 185 LFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 185 y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
|+|++|||||+|++|++||+|+++||+||
T Consensus 162 ~~l~~vLh~~~d~~~~~iL~~~~~al~pg 190 (241)
T PF00891_consen 162 YLLRHVLHDWSDEDCVKILRNAAAALKPG 190 (241)
T ss_dssp EEEESSGGGS-HHHHHHHHHHHHHHSEEC
T ss_pred eeeehhhhhcchHHHHHHHHHHHHHhCCC
Confidence 99999999999999999999999999987
No 3
>TIGR02716 C20_methyl_CrtF C-20 methyltransferase BchU. Members of this protein family are the S-adenosylmethionine-depenedent C-20 methyltransferase BchU, part of the pathway of bacteriochlorophyll c production in photosynthetic green sulfur bacteria. The position modified by this enzyme represents the difference between bacteriochlorophylls c and d; strains lacking this protein can only produced bacteriochlorophyll d.
Probab=99.94 E-value=1.1e-26 Score=196.90 Aligned_cols=201 Identities=13% Similarity=0.160 Sum_probs=139.0
Q ss_pred hhhHHHHHHHHhCchhHH---------cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccCC
Q 042599 2 VLPMTMKTAIQLGVLEIM---------LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFFP 72 (214)
Q Consensus 2 ~~~~~L~~a~~lgifd~L---------LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~~ 72 (214)
+..++|++|++|||||+| ||+++|++++.++|+||+|+++|+|++. +++|++|+.|+.++.
T Consensus 2 ~~~~~l~aa~~Lglfd~L~~gp~t~~eLA~~~~~~~~~~~~lL~~L~~lgll~~~----------~~~y~~t~~~~~~l~ 71 (306)
T TIGR02716 2 IEFSCMKAAIELDLFSHMAEGPKDLATLAADTGSVPPRLEMLLETLRQMRVINLE----------DGKWSLTEFADYMFS 71 (306)
T ss_pred chHHHHHHHHHcCcHHHHhcCCCCHHHHHHHcCCChHHHHHHHHHHHhCCCeEec----------CCcEecchhHHhhcc
Confidence 357899999999999999 9999999999999999999999999985 689999999998776
Q ss_pred CCCCC---chhhHHhhhhchhhhhhhc------ccCCcchhhhcchhh---HhhHHhhhh-hc--cHHHHHh-----cCC
Q 042599 73 NEDGV---SLAPTLLIIQDKVNMDSWA------CKYTQHSYLCMKDAL---LEGFINTLN-RY--YLKNALL-----EGS 132 (214)
Q Consensus 73 ~~~~~---~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~p~~---~~~f~~~m~-~~--~~~~~~~-----~g~ 132 (214)
+++.. ++.+....... .....|. .+++.|+.....|+. ...|...|. .. ...+.+. .+.
T Consensus 72 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 150 (306)
T TIGR02716 72 PTPKEPNLHQTPVAKAMAF-LADDFYMGLSQAVRGQKNFKGQVPYPPVTREDNLYFEEIHRSNAKFAIQLLLEEAKLDGV 150 (306)
T ss_pred CCccchhhhcCchHHHHHH-HHHHHHHhHHHHhcCCcccccccCCCCCCHHHHHhHHHHHHhcchhHHHHHHHHcCCCCC
Confidence 65421 12233222100 0001121 122223322222221 123333332 11 1122221 233
Q ss_pred CceEEccC--CccHHHHHHhCCCc-------hHHHHhhcc------CCCceEEecCCCCc-ccCccceeeeehhccCCCh
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM-------NNLFNQSMH------NHTVVEHVSGHMFI-EVPNGQALFMKWILSDWDD 196 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l-------~~v~~~~~~------~~~rv~~~~gDff~-~~P~~d~y~l~~ILHdw~d 196 (214)
..++|+|| |..+..+++++|++ +.+++.+.. ..+||+++++|||+ ++|.+|+|++++|||+|++
T Consensus 151 ~~vlDiG~G~G~~~~~~~~~~p~~~~~~~D~~~~~~~a~~~~~~~gl~~rv~~~~~d~~~~~~~~~D~v~~~~~lh~~~~ 230 (306)
T TIGR02716 151 KKMIDVGGGIGDISAAMLKHFPELDSTILNLPGAIDLVNENAAEKGVADRMRGIAVDIYKESYPEADAVLFCRILYSANE 230 (306)
T ss_pred CEEEEeCCchhHHHHHHHHHCCCCEEEEEecHHHHHHHHHHHHhCCccceEEEEecCccCCCCCCCCEEEeEhhhhcCCh
Confidence 56999998 66677899999975 345544322 24689999999995 6777899999999999999
Q ss_pred HHHHHHHHHhHHhcCCC
Q 042599 197 EECLKILKNCCVQCNTG 213 (214)
Q Consensus 197 ~~~~~IL~~~~~Al~pg 213 (214)
++|.+||++++++|+||
T Consensus 231 ~~~~~il~~~~~~L~pg 247 (306)
T TIGR02716 231 QLSTIMCKKAFDAMRSG 247 (306)
T ss_pred HHHHHHHHHHHHhcCCC
Confidence 99999999999999997
No 4
>PF08100 Dimerisation: Dimerisation domain; InterPro: IPR012967 This domain is found at the N terminus of a variety of plant O-methyltransferases. It has been shown to mediate dimerisation of these proteins [].; GO: 0008168 methyltransferase activity, 0046983 protein dimerization activity; PDB: 1ZGJ_A 1ZG3_A 1ZHF_A 1ZGA_A 2QYO_A 1KYW_A 1KYZ_A 3REO_D 1FPX_A 1FP2_A ....
Probab=98.28 E-value=4.9e-07 Score=55.93 Aligned_cols=35 Identities=37% Similarity=0.737 Sum_probs=29.8
Q ss_pred HHHHHHHHhCchhHH------------cCCCCC----CChhhHHHHHHHHh
Q 042599 5 MTMKTAIQLGVLEIM------------LPKNNK----ETPIILDRMLRLLA 39 (214)
Q Consensus 5 ~~L~~a~~lgifd~L------------LA~~~~----~~~~~l~rlLr~L~ 39 (214)
++|++|+||||||+| |+++++ .++..|+|+||+|+
T Consensus 1 MaLk~aveLgI~dii~~~g~~~ls~~eia~~l~~~~p~~~~~L~RimR~L~ 51 (51)
T PF08100_consen 1 MALKCAVELGIPDIIHNAGGGPLSLSEIAARLPTSNPSAPPMLDRIMRLLV 51 (51)
T ss_dssp HHHHHHHHTTHHHHHHHHTTS-BEHHHHHHTSTCT-TTHHHHHHHHHHHHH
T ss_pred CcHHHHHHcCcHHHHHHcCCCCCCHHHHHHHcCCCCcchHHHHHHHHHHhC
Confidence 689999999999999 566655 56778999999986
No 5
>PRK06922 hypothetical protein; Provisional
Probab=97.85 E-value=7e-05 Score=69.05 Aligned_cols=114 Identities=11% Similarity=0.086 Sum_probs=77.9
Q ss_pred CcchhhhcchhhHhhHHhhhhh----ccHHH---HHh--cCCCceEEccC--CccHHHHHHhCCCc--------hHHHHh
Q 042599 100 TQHSYLCMKDALLEGFINTLNR----YYLKN---ALL--EGSVPHTKAQS--GMDAFAAAAKDARM--------NNLFNQ 160 (214)
Q Consensus 100 ~~~~~~~~~p~~~~~f~~~m~~----~~~~~---~~~--~g~~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~ 160 (214)
.+|+++...|+..++|...|.. ....+ .+. .+...++|+|+ |..+..+++.+|+. +..++.
T Consensus 378 ~~fd~fg~r~D~~dRf~~~~~yle~m~~~~~~k~~i~d~~~g~rVLDIGCGTG~ls~~LA~~~P~~kVtGIDIS~~MLe~ 457 (677)
T PRK06922 378 LLFDFFGLRKDAYDRFHNEEVYLEHMNSSADDKRIILDYIKGDTIVDVGAGGGVMLDMIEEETEDKRIYGIDISENVIDT 457 (677)
T ss_pred HHHHHhccChhhHhHHHhHHHHHHhccccHHHHHHHhhhcCCCEEEEeCCCCCHHHHHHHHhCCCCEEEEEECCHHHHHH
Confidence 5778888888888888765533 00011 011 13457899997 55555777778854 234444
Q ss_pred hcc----CCCceEEecCCCCc-c--cCc--cceeeeehhccCC-----------ChHHHHHHHHHhHHhcCCC
Q 042599 161 SMH----NHTVVEHVSGHMFI-E--VPN--GQALFMKWILSDW-----------DDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 161 ~~~----~~~rv~~~~gDff~-~--~P~--~d~y~l~~ILHdw-----------~d~~~~~IL~~~~~Al~pg 213 (214)
+.. ...+++++.+|..+ + +|. .|+++++.++|+| ++++..++|++++++|+||
T Consensus 458 Ararl~~~g~~ie~I~gDa~dLp~~fedeSFDvVVsn~vLH~L~syIp~~g~~f~~edl~kiLreI~RVLKPG 530 (677)
T PRK06922 458 LKKKKQNEGRSWNVIKGDAINLSSSFEKESVDTIVYSSILHELFSYIEYEGKKFNHEVIKKGLQSAYEVLKPG 530 (677)
T ss_pred HHHHhhhcCCCeEEEEcchHhCccccCCCCEEEEEEchHHHhhhhhcccccccccHHHHHHHHHHHHHHcCCC
Confidence 432 23468888899875 2 443 4999999999986 4689999999999999998
No 6
>TIGR00740 methyltransferase, putative. A simple BLAST search finds all members of this family and weaker hits to a large number of known and predicted methyltransferases. A single iteration with PSI-BLAST, keeping only clear members of the family, leads to a large number of highly significant hits to a set of known and predicted methyltransferases with a large repertoire of different specifities. This model is restricted to a subfamily found so far only in the Proteobacteria, sharing consistent length, full-length homology, and on average better than 35 % identity. It is reasonable to predict equivalent function within this subfamily.
Probab=97.62 E-value=0.00028 Score=57.61 Aligned_cols=83 Identities=12% Similarity=0.177 Sum_probs=62.1
Q ss_pred CCCceEEccC--CccHHHHHHh--CCCc--------hHHHHhhcc------CCCceEEecCCCCc-ccCccceeeeehhc
Q 042599 131 GSVPHTKAQS--GMDAFAAAAK--DARM--------NNLFNQSMH------NHTVVEHVSGHMFI-EVPNGQALFMKWIL 191 (214)
Q Consensus 131 g~~~~~dvgG--G~~~~~~~~~--~P~l--------~~v~~~~~~------~~~rv~~~~gDff~-~~P~~d~y~l~~IL 191 (214)
....++|+|. |..+..++++ +|+. +..++.+.. ...+++++.+|+.+ +.|+.|+++...+|
T Consensus 53 ~~~~iLDlGcG~G~~~~~l~~~~~~p~~~v~gvD~s~~ml~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~d~v~~~~~l 132 (239)
T TIGR00740 53 PDSNVYDLGCSRGAATLSARRNINQPNVKIIGIDNSQPMVERCRQHIAAYHSEIPVEILCNDIRHVEIKNASMVILNFTL 132 (239)
T ss_pred CCCEEEEecCCCCHHHHHHHHhcCCCCCeEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEECChhhCCCCCCCEEeeecch
Confidence 3456999996 6556666665 3542 334433321 13579999999986 55567999999999
Q ss_pred cCCChHHHHHHHHHhHHhcCCC
Q 042599 192 SDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 192 Hdw~d~~~~~IL~~~~~Al~pg 213 (214)
|.+++++..++|++++++|+||
T Consensus 133 ~~~~~~~~~~~l~~i~~~Lkpg 154 (239)
T TIGR00740 133 QFLPPEDRIALLTKIYEGLNPN 154 (239)
T ss_pred hhCCHHHHHHHHHHHHHhcCCC
Confidence 9999999999999999999997
No 7
>PF12847 Methyltransf_18: Methyltransferase domain; PDB: 3G2Q_A 3G2O_A 3G2M_B 3G2P_B 3D2L_B 1IM8_B 3NJR_A 3E05_H 3EVZ_A 3HM2_A ....
Probab=97.47 E-value=0.00025 Score=50.48 Aligned_cols=81 Identities=12% Similarity=-0.001 Sum_probs=59.2
Q ss_pred CceEEccC--CccHHHHHHhCCCc--------hHHHHhhc------cCCCceEEecCCC-Cc-ccC-ccceeeeeh-hcc
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSM------HNHTVVEHVSGHM-FI-EVP-NGQALFMKW-ILS 192 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~------~~~~rv~~~~gDf-f~-~~P-~~d~y~l~~-ILH 192 (214)
..++|+|. |..+..+++++|.. +..++.+. ...++|+++.+|+ ++ ..+ +-|++++.. .+|
T Consensus 3 ~~vLDlGcG~G~~~~~l~~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~~~~i~~~~~d~~~~~~~~~~~D~v~~~~~~~~ 82 (112)
T PF12847_consen 3 GRVLDLGCGTGRLSIALARLFPGARVVGVDISPEMLEIARERAAEEGLSDRITFVQGDAEFDPDFLEPFDLVICSGFTLH 82 (112)
T ss_dssp CEEEEETTTTSHHHHHHHHHHTTSEEEEEESSHHHHHHHHHHHHHTTTTTTEEEEESCCHGGTTTSSCEEEEEECSGSGG
T ss_pred CEEEEEcCcCCHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEECccccCcccCCCCCEEEECCCccc
Confidence 45899996 66777788866754 33443332 2458999999999 43 233 359999999 677
Q ss_pred CCCh-HHHHHHHHHhHHhcCCC
Q 042599 193 DWDD-EECLKILKNCCVQCNTG 213 (214)
Q Consensus 193 dw~d-~~~~~IL~~~~~Al~pg 213 (214)
.+.+ ++..++|+++++.|+||
T Consensus 83 ~~~~~~~~~~~l~~~~~~L~pg 104 (112)
T PF12847_consen 83 FLLPLDERRRVLERIRRLLKPG 104 (112)
T ss_dssp GCCHHHHHHHHHHHHHHHEEEE
T ss_pred cccchhHHHHHHHHHHHhcCCC
Confidence 6554 79999999999999987
No 8
>PLN03075 nicotianamine synthase; Provisional
Probab=97.45 E-value=0.00056 Score=57.68 Aligned_cols=82 Identities=12% Similarity=0.082 Sum_probs=59.1
Q ss_pred CCCceEEccCCc---cHH-HHHHhCCCc--------hHHHHhhcc-------CCCceEEecCCCCcccC--cc-ceeeee
Q 042599 131 GSVPHTKAQSGM---DAF-AAAAKDARM--------NNLFNQSMH-------NHTVVEHVSGHMFIEVP--NG-QALFMK 188 (214)
Q Consensus 131 g~~~~~dvgGG~---~~~-~~~~~~P~l--------~~v~~~~~~-------~~~rv~~~~gDff~~~P--~~-d~y~l~ 188 (214)
+...++|||.|. .+. ...+..|+- +..++.+.. ..++|+|..+|..+..+ .. |++|++
T Consensus 123 ~p~~VldIGcGpgpltaiilaa~~~p~~~~~giD~d~~ai~~Ar~~~~~~~gL~~rV~F~~~Da~~~~~~l~~FDlVF~~ 202 (296)
T PLN03075 123 VPTKVAFVGSGPLPLTSIVLAKHHLPTTSFHNFDIDPSANDVARRLVSSDPDLSKRMFFHTADVMDVTESLKEYDVVFLA 202 (296)
T ss_pred CCCEEEEECCCCcHHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHhhhccCccCCcEEEECchhhcccccCCcCEEEEe
Confidence 556799999642 233 333456752 233333322 23689999999987543 23 999999
Q ss_pred hhccCCChHHHHHHHHHhHHhcCCC
Q 042599 189 WILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 189 ~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
+||+|+.++-.++|+++++.|+||
T Consensus 203 -ALi~~dk~~k~~vL~~l~~~LkPG 226 (296)
T PLN03075 203 -ALVGMDKEEKVKVIEHLGKHMAPG 226 (296)
T ss_pred -cccccccccHHHHHHHHHHhcCCC
Confidence 999999999999999999999998
No 9
>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional
Probab=97.34 E-value=0.0008 Score=55.35 Aligned_cols=83 Identities=12% Similarity=0.175 Sum_probs=61.2
Q ss_pred CCCceEEccC--CccHHHHHH--hCCCc--------hHHHHhhcc------CCCceEEecCCCCc-ccCccceeeeehhc
Q 042599 131 GSVPHTKAQS--GMDAFAAAA--KDARM--------NNLFNQSMH------NHTVVEHVSGHMFI-EVPNGQALFMKWIL 191 (214)
Q Consensus 131 g~~~~~dvgG--G~~~~~~~~--~~P~l--------~~v~~~~~~------~~~rv~~~~gDff~-~~P~~d~y~l~~IL 191 (214)
....++|+|. |..+..+++ .+|.. +..++.+.. ...+|+++.+|+.+ +.|..|++++..+|
T Consensus 56 ~~~~vLDlGcGtG~~~~~l~~~~~~~~~~v~gvD~S~~ml~~A~~~~~~~~~~~~v~~~~~d~~~~~~~~~D~vv~~~~l 135 (247)
T PRK15451 56 PGTQVYDLGCSLGAATLSVRRNIHHDNCKIIAIDNSPAMIERCRRHIDAYKAPTPVDVIEGDIRDIAIENASMVVLNFTL 135 (247)
T ss_pred CCCEEEEEcccCCHHHHHHHHhcCCCCCeEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEeCChhhCCCCCCCEEehhhHH
Confidence 3456999996 555555655 34643 334443322 23489999999885 44557999999999
Q ss_pred cCCChHHHHHHHHHhHHhcCCC
Q 042599 192 SDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 192 Hdw~d~~~~~IL~~~~~Al~pg 213 (214)
|-.++++-..+|++++++|+||
T Consensus 136 ~~l~~~~~~~~l~~i~~~LkpG 157 (247)
T PRK15451 136 QFLEPSERQALLDKIYQGLNPG 157 (247)
T ss_pred HhCCHHHHHHHHHHHHHhcCCC
Confidence 9999988999999999999997
No 10
>PF13649 Methyltransf_25: Methyltransferase domain; PDB: 3BXO_B 3GGD_A 3PX2_A 3PX3_A 3PFH_D 3PFG_A 1Y8C_A.
Probab=97.12 E-value=0.00062 Score=47.87 Aligned_cols=79 Identities=13% Similarity=0.042 Sum_probs=54.2
Q ss_pred eEEccC--CccHHHHHHhC---CCc--------hHHHHhhcc----CCCceEEecCCCCc-ccCc--cceeee-ehhccC
Q 042599 135 HTKAQS--GMDAFAAAAKD---ARM--------NNLFNQSMH----NHTVVEHVSGHMFI-EVPN--GQALFM-KWILSD 193 (214)
Q Consensus 135 ~~dvgG--G~~~~~~~~~~---P~l--------~~v~~~~~~----~~~rv~~~~gDff~-~~P~--~d~y~l-~~ILHd 193 (214)
++|+|. |.....+.... |+. +..++.+.. ...+++++.+|+-+ +++. .|+++. ..++|.
T Consensus 1 ILDlgcG~G~~~~~l~~~~~~~~~~~~~gvD~s~~~l~~~~~~~~~~~~~~~~~~~D~~~l~~~~~~~D~v~~~~~~~~~ 80 (101)
T PF13649_consen 1 ILDLGCGTGRVTRALARRFDAGPSSRVIGVDISPEMLELAKKRFSEDGPKVRFVQADARDLPFSDGKFDLVVCSGLSLHH 80 (101)
T ss_dssp -EEET-TTSHHHHHHHHHS-----SEEEEEES-HHHHHHHHHHSHHTTTTSEEEESCTTCHHHHSSSEEEEEE-TTGGGG
T ss_pred CEEeecCCcHHHHHHHHHhhhcccceEEEEECCHHHHHHHHHhchhcCCceEEEECCHhHCcccCCCeeEEEEcCCccCC
Confidence 468874 66666666654 321 233333322 22489999999976 3333 499999 455888
Q ss_pred CChHHHHHHHHHhHHhcCCC
Q 042599 194 WDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 194 w~d~~~~~IL~~~~~Al~pg 213 (214)
+++++..++|+++++.++||
T Consensus 81 ~~~~~~~~ll~~~~~~l~pg 100 (101)
T PF13649_consen 81 LSPEELEALLRRIARLLRPG 100 (101)
T ss_dssp SSHHHHHHHHHHHHHTEEEE
T ss_pred CCHHHHHHHHHHHHHHhCCC
Confidence 99999999999999999986
No 11
>PTZ00098 phosphoethanolamine N-methyltransferase; Provisional
Probab=97.01 E-value=0.0024 Score=53.06 Aligned_cols=82 Identities=10% Similarity=0.162 Sum_probs=59.1
Q ss_pred CCceEEccC--CccHHHHHHhCC-Cc------hHHHHhhcc---CCCceEEecCCCCc-ccCcc--ceeeeehhccCCCh
Q 042599 132 SVPHTKAQS--GMDAFAAAAKDA-RM------NNLFNQSMH---NHTVVEHVSGHMFI-EVPNG--QALFMKWILSDWDD 196 (214)
Q Consensus 132 ~~~~~dvgG--G~~~~~~~~~~P-~l------~~v~~~~~~---~~~rv~~~~gDff~-~~P~~--d~y~l~~ILHdw~d 196 (214)
...++|+|. |..+..+++.+. ++ +..++.+.. ..++|+++.+|+.+ ++|.+ |+++...++|.+++
T Consensus 53 ~~~VLDiGcG~G~~a~~la~~~~~~v~giD~s~~~~~~a~~~~~~~~~i~~~~~D~~~~~~~~~~FD~V~s~~~l~h~~~ 132 (263)
T PTZ00098 53 NSKVLDIGSGLGGGCKYINEKYGAHVHGVDICEKMVNIAKLRNSDKNKIEFEANDILKKDFPENTFDMIYSRDAILHLSY 132 (263)
T ss_pred CCEEEEEcCCCChhhHHHHhhcCCEEEEEECCHHHHHHHHHHcCcCCceEEEECCcccCCCCCCCeEEEEEhhhHHhCCH
Confidence 356899996 555555555442 11 233333322 24689999999985 67743 99999988888998
Q ss_pred HHHHHHHHHhHHhcCCC
Q 042599 197 EECLKILKNCCVQCNTG 213 (214)
Q Consensus 197 ~~~~~IL~~~~~Al~pg 213 (214)
++..++|+++++.|+||
T Consensus 133 ~d~~~~l~~i~r~LkPG 149 (263)
T PTZ00098 133 ADKKKLFEKCYKWLKPN 149 (263)
T ss_pred HHHHHHHHHHHHHcCCC
Confidence 88999999999999998
No 12
>PF08242 Methyltransf_12: Methyltransferase domain; InterPro: IPR013217 Methyl transfer from the ubiquitous donor S-adenosyl-L-methionine (SAM) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalyzed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. This entry represents a methyltransferase domain found in a large variety of SAM-dependent methyltransferases including, but not limited to: Hexaprenyldihydroxybenzoate methyltransferase (2.1.1.114 from EC), a mitochodrial enzyme involved in ubiquinone biosynthesis [] Fatty acid synthase (2.3.1.85 from EC), a biosynthetic enzyme catalysing the formation of long-chain fatty acids Glycine N-methyltransferase (2.1.1.20 from EC) which catalyses the SAM-dependent methylation of glycine to form sarcosine and may play a role in regulating the methylation potential of the cell [] Enniatin synthetase, involved in non-ribosomal biosynthesis of cyclohexadepsipeptidase, enniatin [] Histamine N-methyltransferase (2.1.1.8 from EC), a SAM-dependent histamine-inactivating enzyme [] A probable cobalt-precorrin-6Y C(15)-methyltransferase thought to be involved in adenosylcobalamin biosynthesis [] Structural studies show that this domain forms the Rossman-like alpha-beta fold typical of SAM-dependent methyltransferases [, , ].; PDB: 2VZ8_A 2VZ9_A.
Probab=96.91 E-value=0.00049 Score=48.05 Aligned_cols=76 Identities=13% Similarity=0.076 Sum_probs=42.4
Q ss_pred EEccC--CccHHHHHHhCCCch--------HHHHhhcc--------CCCceEEecCCCCcccCc--cceeeeehhccCCC
Q 042599 136 TKAQS--GMDAFAAAAKDARMN--------NLFNQSMH--------NHTVVEHVSGHMFIEVPN--GQALFMKWILSDWD 195 (214)
Q Consensus 136 ~dvgG--G~~~~~~~~~~P~l~--------~v~~~~~~--------~~~rv~~~~gDff~~~P~--~d~y~l~~ILHdw~ 195 (214)
+|+|+ |.....+++++|... ..++.+.. ...++++...|.++..+. -|++++..+||.+
T Consensus 1 LdiGcG~G~~~~~l~~~~~~~~~~~~D~s~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fD~V~~~~vl~~l- 79 (99)
T PF08242_consen 1 LDIGCGTGRLLRALLEELPDARYTGVDISPSMLERARERLAELGNDNFERLRFDVLDLFDYDPPESFDLVVASNVLHHL- 79 (99)
T ss_dssp -EESTTTS-TTTTHHHHC-EEEEEEEESSSSTTSTTCCCHHHCT---EEEEE--SSS---CCC----SEEEEE-TTS---
T ss_pred CEeCccChHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHhhhcCCcceeEEEeecCChhhcccccccceehhhhhHhhh-
Confidence 47886 677777888876542 22222221 113567777777765553 3999999999999
Q ss_pred hHHHHHHHHHhHHhcCCC
Q 042599 196 DEECLKILKNCCVQCNTG 213 (214)
Q Consensus 196 d~~~~~IL~~~~~Al~pg 213 (214)
++-..+|+++++.|+||
T Consensus 80 -~~~~~~l~~~~~~L~pg 96 (99)
T PF08242_consen 80 -EDIEAVLRNIYRLLKPG 96 (99)
T ss_dssp -S-HHHHHHHHTTT-TSS
T ss_pred -hhHHHHHHHHHHHcCCC
Confidence 55569999999999998
No 13
>PF08241 Methyltransf_11: Methyltransferase domain; InterPro: IPR013216 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (SAM) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalyzed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. This entry represents a methyltransferase domain found in a large variety of SAM-dependent methyltransferases including, but not limited to: Arsenite methyltransferase (2.1.1.137 from EC) which converts arsenical compounds to their methylated forms [] Biotin synthesis protein bioC, which is involved in the early stages of biotin biosyntheis [] Arginine N-methyltransferase 1, an arginine-methylating enzyme which acts on residues present in a glycine and argine-rich domain and can methylate histones [] Hexaprenyldihydroxybenzoate methyltransferase (2.1.1.114 from EC), a mitochodrial enzyme involved in ubiquinone biosynthesis [] A probable cobalt-precorrin-6Y C(15)-methyltransferase thought to be involved in adenosylcobalamin biosynthesis [] Sterol 24-C-methyltransferase (2.1.1.41 from EC), shown to participate in ergosterol biosynthesis [] 3-demethylubiquinone-9 3-methyltransferase (2.1.1.64 from EC) involved in ubiquinone biosynthesis [] Structural studies show that this domain forms the Rossman-like alpha-beta fold typical of SAM-dependent methyltransferases [, , ]. ; GO: 0008168 methyltransferase activity, 0008152 metabolic process; PDB: 3CGG_B 3CCF_B 3BKW_B 2PXX_A 3I9F_A 2YQZ_B 2YR0_A 3BUS_A 3EGE_A 3G5L_B ....
Probab=96.85 E-value=0.0037 Score=42.53 Aligned_cols=75 Identities=17% Similarity=0.188 Sum_probs=52.7
Q ss_pred EEccC--CccHHHHHHhCCCc--------hHHHHhhcc--CCCceEEecCCCCc-ccCcc--ceeeeehhccCCChHHHH
Q 042599 136 TKAQS--GMDAFAAAAKDARM--------NNLFNQSMH--NHTVVEHVSGHMFI-EVPNG--QALFMKWILSDWDDEECL 200 (214)
Q Consensus 136 ~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~--~~~rv~~~~gDff~-~~P~~--d~y~l~~ILHdw~d~~~~ 200 (214)
+|+|. |..+..+.++ +.. +..++.+.. ...+++++.+|+.+ |+|.+ |+++...++|.+ ++-.
T Consensus 1 LdiG~G~G~~~~~l~~~-~~~~v~~~D~~~~~~~~~~~~~~~~~~~~~~~d~~~l~~~~~sfD~v~~~~~~~~~--~~~~ 77 (95)
T PF08241_consen 1 LDIGCGTGRFAAALAKR-GGASVTGIDISEEMLEQARKRLKNEGVSFRQGDAEDLPFPDNSFDVVFSNSVLHHL--EDPE 77 (95)
T ss_dssp EEET-TTSHHHHHHHHT-TTCEEEEEES-HHHHHHHHHHTTTSTEEEEESBTTSSSS-TT-EEEEEEESHGGGS--SHHH
T ss_pred CEecCcCCHHHHHHHhc-cCCEEEEEeCCHHHHHHHHhcccccCchheeehHHhCccccccccccccccceeec--cCHH
Confidence 47774 5666666666 322 233333332 24567799999886 66643 999999999999 8889
Q ss_pred HHHHHhHHhcCCC
Q 042599 201 KILKNCCVQCNTG 213 (214)
Q Consensus 201 ~IL~~~~~Al~pg 213 (214)
++|+++.+.|+||
T Consensus 78 ~~l~e~~rvLk~g 90 (95)
T PF08241_consen 78 AALREIYRVLKPG 90 (95)
T ss_dssp HHHHHHHHHEEEE
T ss_pred HHHHHHHHHcCcC
Confidence 9999999999986
No 14
>PRK14103 trans-aconitate 2-methyltransferase; Provisional
Probab=96.85 E-value=0.0075 Score=49.69 Aligned_cols=78 Identities=10% Similarity=-0.008 Sum_probs=57.8
Q ss_pred CCceEEccC--CccHHHHHHhCCCc--------hHHHHhhccCCCceEEecCCCCcccCc--cceeeeehhccCCChHHH
Q 042599 132 SVPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMHNHTVVEHVSGHMFIEVPN--GQALFMKWILSDWDDEEC 199 (214)
Q Consensus 132 ~~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~~~~rv~~~~gDff~~~P~--~d~y~l~~ILHdw~d~~~ 199 (214)
...++|+|+ |..+..+.++.|.. +..+..+.. .+++++.+|+.+..|. -|+++...+||..+|.
T Consensus 30 ~~~vLDlGcG~G~~~~~l~~~~p~~~v~gvD~s~~~~~~a~~--~~~~~~~~d~~~~~~~~~fD~v~~~~~l~~~~d~-- 105 (255)
T PRK14103 30 ARRVVDLGCGPGNLTRYLARRWPGAVIEALDSSPEMVAAARE--RGVDARTGDVRDWKPKPDTDVVVSNAALQWVPEH-- 105 (255)
T ss_pred CCEEEEEcCCCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHh--cCCcEEEcChhhCCCCCCceEEEEehhhhhCCCH--
Confidence 356899996 66666777877753 234444433 3688999998654343 4999999999987764
Q ss_pred HHHHHHhHHhcCCC
Q 042599 200 LKILKNCCVQCNTG 213 (214)
Q Consensus 200 ~~IL~~~~~Al~pg 213 (214)
.++|+++++.|+||
T Consensus 106 ~~~l~~~~~~Lkpg 119 (255)
T PRK14103 106 ADLLVRWVDELAPG 119 (255)
T ss_pred HHHHHHHHHhCCCC
Confidence 67899999999998
No 15
>TIGR03587 Pse_Me-ase pseudaminic acid biosynthesis-associated methylase. Members of this small clade are methyltransferases of the pfam08241 family and are observed within operons for the biosynthesis of pseudaminic acid, a component of exopolysaccharide and flagellin glycosyl modifications. Notable among these genomes is Pseudomonas fluorescens PfO-1. Possibly one of the two hydroxyl groups of pseudaminic acid, at positions 4 and 8 is converted to a methoxy group by this enzyme
Probab=96.70 E-value=0.0061 Score=48.75 Aligned_cols=79 Identities=10% Similarity=0.077 Sum_probs=60.3
Q ss_pred CceEEccC--CccHHHHHHhCCCc--------hHHHHhhccCCCceEEecCCCCcccCcc--ceeeeehhccCCChHHHH
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMHNHTVVEHVSGHMFIEVPNG--QALFMKWILSDWDDEECL 200 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~~~~rv~~~~gDff~~~P~~--d~y~l~~ILHdw~d~~~~ 200 (214)
..++|+|. |..+..+.+..|.. +..++.+....+++++..+|++++.|.+ |+++...+||.+++++..
T Consensus 45 ~~VLDiGCG~G~~~~~L~~~~~~~~v~giDiS~~~l~~A~~~~~~~~~~~~d~~~~~~~~sfD~V~~~~vL~hl~p~~~~ 124 (204)
T TIGR03587 45 ASILELGANIGMNLAALKRLLPFKHIYGVEINEYAVEKAKAYLPNINIIQGSLFDPFKDNFFDLVLTKGVLIHINPDNLP 124 (204)
T ss_pred CcEEEEecCCCHHHHHHHHhCCCCeEEEEECCHHHHHHHHhhCCCCcEEEeeccCCCCCCCEEEEEECChhhhCCHHHHH
Confidence 46999996 55555666665542 3456666554567889999999877643 999999999999988999
Q ss_pred HHHHHhHHhcC
Q 042599 201 KILKNCCVQCN 211 (214)
Q Consensus 201 ~IL~~~~~Al~ 211 (214)
+.++++.+.++
T Consensus 125 ~~l~el~r~~~ 135 (204)
T TIGR03587 125 TAYRELYRCSN 135 (204)
T ss_pred HHHHHHHhhcC
Confidence 99999998764
No 16
>PRK01683 trans-aconitate 2-methyltransferase; Provisional
Probab=96.67 E-value=0.0067 Score=49.94 Aligned_cols=80 Identities=10% Similarity=0.029 Sum_probs=59.8
Q ss_pred CCceEEccC--CccHHHHHHhCCCc--------hHHHHhhccCCCceEEecCCCCcccC--ccceeeeehhccCCChHHH
Q 042599 132 SVPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMHNHTVVEHVSGHMFIEVP--NGQALFMKWILSDWDDEEC 199 (214)
Q Consensus 132 ~~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~~~~rv~~~~gDff~~~P--~~d~y~l~~ILHdw~d~~~ 199 (214)
...++|+|. |.....+++.+|.. +..++.+....++++++.+|+.+..| +-|+++...+||..+|.
T Consensus 32 ~~~vLDiGcG~G~~~~~la~~~~~~~v~gvD~s~~~i~~a~~~~~~~~~~~~d~~~~~~~~~fD~v~~~~~l~~~~d~-- 109 (258)
T PRK01683 32 PRYVVDLGCGPGNSTELLVERWPAARITGIDSSPAMLAEARSRLPDCQFVEADIASWQPPQALDLIFANASLQWLPDH-- 109 (258)
T ss_pred CCEEEEEcccCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHhCCCCeEEECchhccCCCCCccEEEEccChhhCCCH--
Confidence 356899996 66666777777753 34555555555679999999876444 24999999999866654
Q ss_pred HHHHHHhHHhcCCC
Q 042599 200 LKILKNCCVQCNTG 213 (214)
Q Consensus 200 ~~IL~~~~~Al~pg 213 (214)
.++|+++.++|+||
T Consensus 110 ~~~l~~~~~~Lkpg 123 (258)
T PRK01683 110 LELFPRLVSLLAPG 123 (258)
T ss_pred HHHHHHHHHhcCCC
Confidence 57999999999987
No 17
>TIGR03438 probable methyltransferase. This model represents a distinct set of uncharacterized proteins found in the bacteria. Analysis by PSI-BLAST shows remote sequence homology to methyltransferases
Probab=96.64 E-value=0.012 Score=49.85 Aligned_cols=81 Identities=11% Similarity=0.123 Sum_probs=56.9
Q ss_pred CceEEccC--CccHHHHHHhCCC--------c-hHHHHhhc----cCC--CceEEecCCCCcc--cCc------cceeee
Q 042599 133 VPHTKAQS--GMDAFAAAAKDAR--------M-NNLFNQSM----HNH--TVVEHVSGHMFIE--VPN------GQALFM 187 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~--------l-~~v~~~~~----~~~--~rv~~~~gDff~~--~P~------~d~y~l 187 (214)
..++|+|. |.....++++.+. + +..++.+. ... -+|+++.|||++. +|. ..++++
T Consensus 65 ~~iLELGcGtG~~t~~Ll~~l~~~~~~~~iDiS~~mL~~a~~~l~~~~p~~~v~~i~gD~~~~~~~~~~~~~~~~~~~~~ 144 (301)
T TIGR03438 65 CELVELGSGSSRKTRLLLDALRQPARYVPIDISADALKESAAALAADYPQLEVHGICADFTQPLALPPEPAAGRRLGFFP 144 (301)
T ss_pred CeEEecCCCcchhHHHHHHhhccCCeEEEEECCHHHHHHHHHHHHhhCCCceEEEEEEcccchhhhhcccccCCeEEEEe
Confidence 56999996 5555667766541 1 22333222 112 3577889999863 332 147888
Q ss_pred ehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 188 KWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 188 ~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
...+|+++++++..+|++++++|+||
T Consensus 145 gs~~~~~~~~e~~~~L~~i~~~L~pg 170 (301)
T TIGR03438 145 GSTIGNFTPEEAVAFLRRIRQLLGPG 170 (301)
T ss_pred cccccCCCHHHHHHHHHHHHHhcCCC
Confidence 89999999999999999999999997
No 18
>smart00138 MeTrc Methyltransferase, chemotaxis proteins. Methylates methyl-accepting chemotaxis proteins to form gamma-glutamyl methyl ester residues.
Probab=96.57 E-value=0.0031 Score=52.52 Aligned_cols=48 Identities=21% Similarity=0.349 Sum_probs=43.0
Q ss_pred CceEEecCCCCcccC-cc--ceeeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 166 TVVEHVSGHMFIEVP-NG--QALFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 166 ~rv~~~~gDff~~~P-~~--d~y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
.+|+|..+|+.++.| .+ |+++.++|||-|++++..++|++++++|+||
T Consensus 185 ~~V~F~~~dl~~~~~~~~~fD~I~crnvl~yf~~~~~~~~l~~l~~~L~pG 235 (264)
T smart00138 185 ERVRFAKHNLLAESPPLGDFDLIFCRNVLIYFDEPTQRKLLNRFAEALKPG 235 (264)
T ss_pred CcCEEeeccCCCCCCccCCCCEEEechhHHhCCHHHHHHHHHHHHHHhCCC
Confidence 369999999997543 33 9999999999999999999999999999997
No 19
>PF05401 NodS: Nodulation protein S (NodS); InterPro: IPR008715 This entry consists of nodulation S (NodS) proteins. The products of the rhizobial nodulation genes are involved in the biosynthesis of lipochitin oligosaccharides (LCOs), which are host-specific signal molecules required for nodule formation. NodS is an S-adenosyl-L-methionine (SAM)-dependent methyltransferase involved in N methylation of LCOs. NodS uses N-deacetylated chitooligosaccharides, the products of the NodBC proteins, as its methyl acceptors [].; GO: 0008757 S-adenosylmethionine-dependent methyltransferase activity, 0009312 oligosaccharide biosynthetic process, 0009877 nodulation; PDB: 3OFK_D 3OFJ_A.
Probab=96.55 E-value=0.005 Score=48.79 Aligned_cols=80 Identities=16% Similarity=0.162 Sum_probs=56.1
Q ss_pred ceEEccC--CccHHHHHHhCCCc------hHHHHhhc---cCCCceEEecCCCCcccCcc--ceeeeehhccCCCh-HHH
Q 042599 134 PHTKAQS--GMDAFAAAAKDARM------NNLFNQSM---HNHTVVEHVSGHMFIEVPNG--QALFMKWILSDWDD-EEC 199 (214)
Q Consensus 134 ~~~dvgG--G~~~~~~~~~~P~l------~~v~~~~~---~~~~rv~~~~gDff~~~P~~--d~y~l~~ILHdw~d-~~~ 199 (214)
...++|+ |.....++.+--.+ +..++.+. ...++|+++..|+-+..|.+ |++.++-|+|-++| ++-
T Consensus 46 ~alEvGCs~G~lT~~LA~rCd~LlavDis~~Al~~Ar~Rl~~~~~V~~~~~dvp~~~P~~~FDLIV~SEVlYYL~~~~~L 125 (201)
T PF05401_consen 46 RALEVGCSIGVLTERLAPRCDRLLAVDISPRALARARERLAGLPHVEWIQADVPEFWPEGRFDLIVLSEVLYYLDDAEDL 125 (201)
T ss_dssp EEEEE--TTSHHHHHHGGGEEEEEEEES-HHHHHHHHHHTTT-SSEEEEES-TTT---SS-EEEEEEES-GGGSSSHHHH
T ss_pred eeEecCCCccHHHHHHHHhhCceEEEeCCHHHHHHHHHhcCCCCCeEEEECcCCCCCCCCCeeEEEEehHhHcCCCHHHH
Confidence 3578997 66666776665444 34455443 34578999999998878864 99999999999986 688
Q ss_pred HHHHHHhHHhcCCC
Q 042599 200 LKILKNCCVQCNTG 213 (214)
Q Consensus 200 ~~IL~~~~~Al~pg 213 (214)
...++++.++|+||
T Consensus 126 ~~~l~~l~~~L~pg 139 (201)
T PF05401_consen 126 RAALDRLVAALAPG 139 (201)
T ss_dssp HHHHHHHHHTEEEE
T ss_pred HHHHHHHHHHhCCC
Confidence 99999999999986
No 20
>PF13847 Methyltransf_31: Methyltransferase domain; PDB: 3T0I_B 3SVZ_B 3SXJ_A 3F4K_A 3GU3_B 2GH1_A 1R8Y_E 1R8X_B 2B3T_A 1T43_A ....
Probab=96.31 E-value=0.016 Score=43.77 Aligned_cols=80 Identities=15% Similarity=0.161 Sum_probs=58.1
Q ss_pred CCceEEccC--CccHHHHH-HhCCCc--------hHHHHhhcc-----CCCceEEecCCCCc-c--cC-ccceeeeehhc
Q 042599 132 SVPHTKAQS--GMDAFAAA-AKDARM--------NNLFNQSMH-----NHTVVEHVSGHMFI-E--VP-NGQALFMKWIL 191 (214)
Q Consensus 132 ~~~~~dvgG--G~~~~~~~-~~~P~l--------~~v~~~~~~-----~~~rv~~~~gDff~-~--~P-~~d~y~l~~IL 191 (214)
...++|+|. |.....++ ..+|.. +..++.+.. ..+++++..+|+++ + ++ +-|+++...++
T Consensus 4 ~~~iLDlGcG~G~~~~~l~~~~~~~~~i~gvD~s~~~i~~a~~~~~~~~~~ni~~~~~d~~~l~~~~~~~~D~I~~~~~l 83 (152)
T PF13847_consen 4 NKKILDLGCGTGRLLIQLAKELNPGAKIIGVDISEEMIEYAKKRAKELGLDNIEFIQGDIEDLPQELEEKFDIIISNGVL 83 (152)
T ss_dssp TSEEEEET-TTSHHHHHHHHHSTTTSEEEEEESSHHHHHHHHHHHHHTTSTTEEEEESBTTCGCGCSSTTEEEEEEESTG
T ss_pred CCEEEEecCcCcHHHHHHHHhcCCCCEEEEEECcHHHHHHhhcccccccccccceEEeehhccccccCCCeeEEEEcCch
Confidence 356899996 66677777 445632 345555443 24589999999998 2 22 35999999999
Q ss_pred cCCChHHHHHHHHHhHHhcCCC
Q 042599 192 SDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 192 Hdw~d~~~~~IL~~~~~Al~pg 213 (214)
|..++.. .+|+++.+.|++|
T Consensus 84 ~~~~~~~--~~l~~~~~~lk~~ 103 (152)
T PF13847_consen 84 HHFPDPE--KVLKNIIRLLKPG 103 (152)
T ss_dssp GGTSHHH--HHHHHHHHHEEEE
T ss_pred hhccCHH--HHHHHHHHHcCCC
Confidence 9999875 7799999999875
No 21
>PRK11036 putative S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=96.28 E-value=0.0089 Score=49.27 Aligned_cols=80 Identities=10% Similarity=0.094 Sum_probs=56.2
Q ss_pred CCceEEccC--CccHHHHHHhCCCc------hHHHHhhcc------CCCceEEecCCCCc--ccCc--cceeeeehhccC
Q 042599 132 SVPHTKAQS--GMDAFAAAAKDARM------NNLFNQSMH------NHTVVEHVSGHMFI--EVPN--GQALFMKWILSD 193 (214)
Q Consensus 132 ~~~~~dvgG--G~~~~~~~~~~P~l------~~v~~~~~~------~~~rv~~~~gDff~--~~P~--~d~y~l~~ILHd 193 (214)
...++|+|+ |..+..+++...++ +..++.+.. ..++++++.+|+.+ +.+. -|++++..+||.
T Consensus 45 ~~~vLDiGcG~G~~a~~la~~g~~v~~vD~s~~~l~~a~~~~~~~g~~~~v~~~~~d~~~l~~~~~~~fD~V~~~~vl~~ 124 (255)
T PRK11036 45 PLRVLDAGGGEGQTAIKLAELGHQVILCDLSAEMIQRAKQAAEAKGVSDNMQFIHCAAQDIAQHLETPVDLILFHAVLEW 124 (255)
T ss_pred CCEEEEeCCCchHHHHHHHHcCCEEEEEECCHHHHHHHHHHHHhcCCccceEEEEcCHHHHhhhcCCCCCEEEehhHHHh
Confidence 356899997 55555666654433 233333321 13578999999864 3443 499999999998
Q ss_pred CChHHHHHHHHHhHHhcCCC
Q 042599 194 WDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 194 w~d~~~~~IL~~~~~Al~pg 213 (214)
++|.. .+|+++.+.|+||
T Consensus 125 ~~~~~--~~l~~~~~~Lkpg 142 (255)
T PRK11036 125 VADPK--SVLQTLWSVLRPG 142 (255)
T ss_pred hCCHH--HHHHHHHHHcCCC
Confidence 87664 7899999999997
No 22
>PLN02490 MPBQ/MSBQ methyltransferase
Probab=96.27 E-value=0.011 Score=51.07 Aligned_cols=80 Identities=9% Similarity=0.144 Sum_probs=57.8
Q ss_pred CCceEEccC--CccHHHHHHhCCCc--------hHHHHhhccC--CCceEEecCCCCc-ccCc--cceeeeehhccCCCh
Q 042599 132 SVPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMHN--HTVVEHVSGHMFI-EVPN--GQALFMKWILSDWDD 196 (214)
Q Consensus 132 ~~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~~--~~rv~~~~gDff~-~~P~--~d~y~l~~ILHdw~d 196 (214)
...++|+|+ |.....+++..|.. +..++.+... ..+++++.+|+.+ ++|. -|+++...+||.|+|
T Consensus 114 ~~~VLDLGcGtG~~~l~La~~~~~~~VtgVD~S~~mL~~A~~k~~~~~i~~i~gD~e~lp~~~~sFDvVIs~~~L~~~~d 193 (340)
T PLN02490 114 NLKVVDVGGGTGFTTLGIVKHVDAKNVTILDQSPHQLAKAKQKEPLKECKIIEGDAEDLPFPTDYADRYVSAGSIEYWPD 193 (340)
T ss_pred CCEEEEEecCCcHHHHHHHHHCCCCEEEEEECCHHHHHHHHHhhhccCCeEEeccHHhCCCCCCceeEEEEcChhhhCCC
Confidence 356899996 55455666666532 2233333321 3578999999885 5554 399999999999998
Q ss_pred HHHHHHHHHhHHhcCCC
Q 042599 197 EECLKILKNCCVQCNTG 213 (214)
Q Consensus 197 ~~~~~IL~~~~~Al~pg 213 (214)
.+ ++|+++++.|+||
T Consensus 194 ~~--~~L~e~~rvLkPG 208 (340)
T PLN02490 194 PQ--RGIKEAYRVLKIG 208 (340)
T ss_pred HH--HHHHHHHHhcCCC
Confidence 75 6899999999997
No 23
>PRK11207 tellurite resistance protein TehB; Provisional
Probab=96.26 E-value=0.019 Score=45.58 Aligned_cols=81 Identities=9% Similarity=-0.020 Sum_probs=58.1
Q ss_pred CceEEccC--CccHHHHHHhCCCc------hHHHHhhc-----cCCCceEEecCCCCc-ccCc-cceeeeehhccCCChH
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM------NNLFNQSM-----HNHTVVEHVSGHMFI-EVPN-GQALFMKWILSDWDDE 197 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l------~~v~~~~~-----~~~~rv~~~~gDff~-~~P~-~d~y~l~~ILHdw~d~ 197 (214)
..++|+|+ |..+..++++.-++ +..++.+. ...+.|++...|+.+ +.+. -|+++...++|.++++
T Consensus 32 ~~vLDiGcG~G~~a~~La~~g~~V~gvD~S~~~i~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~fD~I~~~~~~~~~~~~ 111 (197)
T PRK11207 32 GKTLDLGCGNGRNSLYLAANGFDVTAWDKNPMSIANLERIKAAENLDNLHTAVVDLNNLTFDGEYDFILSTVVLMFLEAK 111 (197)
T ss_pred CcEEEECCCCCHHHHHHHHCCCEEEEEeCCHHHHHHHHHHHHHcCCCcceEEecChhhCCcCCCcCEEEEecchhhCCHH
Confidence 56899996 66566666653322 22233221 123458888899875 3444 4999999999999999
Q ss_pred HHHHHHHHhHHhcCCC
Q 042599 198 ECLKILKNCCVQCNTG 213 (214)
Q Consensus 198 ~~~~IL~~~~~Al~pg 213 (214)
+...++++++++|+||
T Consensus 112 ~~~~~l~~i~~~Lkpg 127 (197)
T PRK11207 112 TIPGLIANMQRCTKPG 127 (197)
T ss_pred HHHHHHHHHHHHcCCC
Confidence 9999999999999997
No 24
>COG2226 UbiE Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]
Probab=96.22 E-value=0.011 Score=48.33 Aligned_cols=79 Identities=19% Similarity=0.140 Sum_probs=58.9
Q ss_pred CceEEccC--CccHHHHHHhCCCc--------hHHHHhhccC-----CCceEEecCCCCc-ccCcc--ceeeeehhccCC
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMHN-----HTVVEHVSGHMFI-EVPNG--QALFMKWILSDW 194 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~~-----~~rv~~~~gDff~-~~P~~--d~y~l~~ILHdw 194 (214)
..++||++ |..+..+.+..+.- +..++.+... ...|+|+.+|..+ |+|.. |++.++.-||+.
T Consensus 53 ~~vLDva~GTGd~a~~~~k~~g~g~v~~~D~s~~ML~~a~~k~~~~~~~~i~fv~~dAe~LPf~D~sFD~vt~~fglrnv 132 (238)
T COG2226 53 DKVLDVACGTGDMALLLAKSVGTGEVVGLDISESMLEVAREKLKKKGVQNVEFVVGDAENLPFPDNSFDAVTISFGLRNV 132 (238)
T ss_pred CEEEEecCCccHHHHHHHHhcCCceEEEEECCHHHHHHHHHHhhccCccceEEEEechhhCCCCCCccCEEEeeehhhcC
Confidence 45899987 66677788887632 1233333221 1239999999986 78853 999999999999
Q ss_pred ChHHHHHHHHHhHHhcCCC
Q 042599 195 DDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 195 ~d~~~~~IL~~~~~Al~pg 213 (214)
+| --+.|+.+++.|+||
T Consensus 133 ~d--~~~aL~E~~RVlKpg 149 (238)
T COG2226 133 TD--IDKALKEMYRVLKPG 149 (238)
T ss_pred CC--HHHHHHHHHHhhcCC
Confidence 95 457899999999998
No 25
>PLN02233 ubiquinone biosynthesis methyltransferase
Probab=96.05 E-value=0.026 Score=46.89 Aligned_cols=79 Identities=16% Similarity=0.122 Sum_probs=55.9
Q ss_pred CceEEccC--CccHHHHHHhC-CC--c------hHHHHhhcc--------CCCceEEecCCCCc-ccCcc--ceeeeehh
Q 042599 133 VPHTKAQS--GMDAFAAAAKD-AR--M------NNLFNQSMH--------NHTVVEHVSGHMFI-EVPNG--QALFMKWI 190 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~-P~--l------~~v~~~~~~--------~~~rv~~~~gDff~-~~P~~--d~y~l~~I 190 (214)
..++|+|. |..+..+.++. |. + +..++.+.. ..++|+++.+|..+ |+|.+ |++++...
T Consensus 75 ~~VLDlGcGtG~~~~~la~~~~~~~~V~gvD~S~~ml~~A~~r~~~~~~~~~~~i~~~~~d~~~lp~~~~sfD~V~~~~~ 154 (261)
T PLN02233 75 DRVLDLCCGSGDLAFLLSEKVGSDGKVMGLDFSSEQLAVAASRQELKAKSCYKNIEWIEGDATDLPFDDCYFDAITMGYG 154 (261)
T ss_pred CEEEEECCcCCHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHhhhhhhccCCCeEEEEcccccCCCCCCCEeEEEEecc
Confidence 56899996 55445555553 42 1 233443321 13579999999875 56643 99999999
Q ss_pred ccCCChHHHHHHHHHhHHhcCCC
Q 042599 191 LSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 191 LHdw~d~~~~~IL~~~~~Al~pg 213 (214)
||+++|. .++|+++++.|+||
T Consensus 155 l~~~~d~--~~~l~ei~rvLkpG 175 (261)
T PLN02233 155 LRNVVDR--LKAMQEMYRVLKPG 175 (261)
T ss_pred cccCCCH--HHHHHHHHHHcCcC
Confidence 9999865 56899999999997
No 26
>smart00828 PKS_MT Methyltransferase in polyketide synthase (PKS) enzymes.
Probab=95.97 E-value=0.026 Score=45.33 Aligned_cols=78 Identities=10% Similarity=0.100 Sum_probs=56.3
Q ss_pred ceEEccC--CccHHHHHHhCCCc--------hHHHHhhcc------CCCceEEecCCCCc-ccCc-cceeeeehhccCCC
Q 042599 134 PHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMH------NHTVVEHVSGHMFI-EVPN-GQALFMKWILSDWD 195 (214)
Q Consensus 134 ~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~------~~~rv~~~~gDff~-~~P~-~d~y~l~~ILHdw~ 195 (214)
.++|+|. |..+..+++.+|.. +..++.+.. ..++++++.+|+.+ +.|. -|+++...++|.++
T Consensus 2 ~vLDiGcG~G~~~~~la~~~~~~~v~gid~s~~~~~~a~~~~~~~gl~~~i~~~~~d~~~~~~~~~fD~I~~~~~l~~~~ 81 (224)
T smart00828 2 RVLDFGCGYGSDLIDLAERHPHLQLHGYTISPEQAEVGRERIRALGLQGRIRIFYRDSAKDPFPDTYDLVFGFEVIHHIK 81 (224)
T ss_pred eEEEECCCCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHhcCCCcceEEEecccccCCCCCCCCEeehHHHHHhCC
Confidence 4789996 66666777777643 122222221 24689999999975 4444 49999999999987
Q ss_pred hHHHHHHHHHhHHhcCCC
Q 042599 196 DEECLKILKNCCVQCNTG 213 (214)
Q Consensus 196 d~~~~~IL~~~~~Al~pg 213 (214)
+. ..+|+++++.|+||
T Consensus 82 ~~--~~~l~~~~~~Lkpg 97 (224)
T smart00828 82 DK--MDLFSNISRHLKDG 97 (224)
T ss_pred CH--HHHHHHHHHHcCCC
Confidence 74 68999999999997
No 27
>TIGR01934 MenG_MenH_UbiE ubiquinone/menaquinone biosynthesis methyltransferases. Note that a number of non-orthologous genes which are members of pfam03737 have been erroneously annotated as MenG methyltransferases.
Probab=95.94 E-value=0.032 Score=44.37 Aligned_cols=80 Identities=13% Similarity=0.092 Sum_probs=58.1
Q ss_pred CCceEEccC--CccHHHHHHhCCC---c------hHHHHhhcc---CCCceEEecCCCCc-ccCc--cceeeeehhccCC
Q 042599 132 SVPHTKAQS--GMDAFAAAAKDAR---M------NNLFNQSMH---NHTVVEHVSGHMFI-EVPN--GQALFMKWILSDW 194 (214)
Q Consensus 132 ~~~~~dvgG--G~~~~~~~~~~P~---l------~~v~~~~~~---~~~rv~~~~gDff~-~~P~--~d~y~l~~ILHdw 194 (214)
...++|+|+ |.....++++.|. + +..++.+.. ...+++++.+|+.+ +.+. .|++++..++|+.
T Consensus 40 ~~~vldiG~G~G~~~~~~~~~~~~~~~~~~iD~~~~~~~~~~~~~~~~~~i~~~~~d~~~~~~~~~~~D~i~~~~~~~~~ 119 (223)
T TIGR01934 40 GQKVLDVACGTGDLAIELAKSAPDRGKVTGVDFSSEMLEVAKKKSELPLNIEFIQADAEALPFEDNSFDAVTIAFGLRNV 119 (223)
T ss_pred CCeEEEeCCCCChhHHHHHHhcCCCceEEEEECCHHHHHHHHHHhccCCCceEEecchhcCCCCCCcEEEEEEeeeeCCc
Confidence 356899996 6666677777774 1 233333322 24579999999986 3443 4999999999988
Q ss_pred ChHHHHHHHHHhHHhcCCC
Q 042599 195 DDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 195 ~d~~~~~IL~~~~~Al~pg 213 (214)
++ ...+|+++.+.|+||
T Consensus 120 ~~--~~~~l~~~~~~L~~g 136 (223)
T TIGR01934 120 TD--IQKALREMYRVLKPG 136 (223)
T ss_pred cc--HHHHHHHHHHHcCCC
Confidence 76 568999999999987
No 28
>PF01739 CheR: CheR methyltransferase, SAM binding domain; InterPro: IPR022642 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. Flagellated bacteria swim towards favourable chemicals and away from deleterious ones. Sensing of chemoeffector gradients involves chemotaxis receptors, transmembrane (TM) proteins that detect stimuli through their periplasmic domains and transduce the signals via their cytoplasmic domains []. Signalling outputs from these receptors are influenced both by the binding of the chemoeffector ligand to their periplasmic domains and by methylation of specific glutamate residues on their cytoplasmic domains. Methylation is catalysed by CheR, an S-adenosylmethionine-dependent methyltransferase [], which reversibly methylates specific glutamate residues within a coiled coil region, to form gamma-glutamyl methyl ester residues [, ]. The structure of the Salmonella typhimurium chemotaxis receptor methyltransferase CheR, bound to S-adenosylhomocysteine, has been determined to a resolution of 2.0 A []. The structure reveals CheR to be a two-domain protein, with a smaller N-terminal helical domain linked via a single polypeptide connection to a larger C-terminal alpha/beta domain. The C-terminal domain has the characteristics of a nucleotide-binding fold, with an insertion of a small anti-parallel beta-sheet subdomain. The S-adenosylhomocysteine-binding site is formed mainly by the large domain, with contributions from residues within the N-terminal domain and the linker region []. CheR proteins are part of the chemotaxis signaling mechanism which methylates the chemotaxis receptor at specific glutamate residues. This entry refers to the C-terminal SAM-binding domain of the CherR-type MCP methyltransferases, which are found in bacteria, archaea and green plants. This entry is found in association with PF03705 from PFAM. ; PDB: 1AF7_A 1BC5_A.
Probab=95.93 E-value=0.0062 Score=48.46 Aligned_cols=48 Identities=19% Similarity=0.309 Sum_probs=36.7
Q ss_pred CceEEecCCCCcc-cCcc--ceeeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 166 TVVEHVSGHMFIE-VPNG--QALFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 166 ~rv~~~~gDff~~-~P~~--d~y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
.+|+|..+|..++ .|.+ |+++.||||--++++...+||++++++|+||
T Consensus 118 ~~V~F~~~NL~~~~~~~~~fD~I~CRNVlIYF~~~~~~~vl~~l~~~L~pg 168 (196)
T PF01739_consen 118 KMVRFRRHNLLDPDPPFGRFDLIFCRNVLIYFDPETQQRVLRRLHRSLKPG 168 (196)
T ss_dssp TTEEEEE--TT-S------EEEEEE-SSGGGS-HHHHHHHHHHHGGGEEEE
T ss_pred CceEEEecccCCCCcccCCccEEEecCEEEEeCHHHHHHHHHHHHHHcCCC
Confidence 4799999999983 3333 9999999999999999999999999999986
No 29
>PRK10611 chemotaxis methyltransferase CheR; Provisional
Probab=95.75 E-value=0.013 Score=49.43 Aligned_cols=48 Identities=13% Similarity=0.188 Sum_probs=43.5
Q ss_pred CceEEecCCCCc-ccC-c-c-ceeeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 166 TVVEHVSGHMFI-EVP-N-G-QALFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 166 ~rv~~~~gDff~-~~P-~-~-d~y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
.+|+|..+|.++ +.| . . |+++.++||.-++++.-.+++++++++|+||
T Consensus 204 ~~V~F~~~NL~~~~~~~~~~fD~I~cRNvliyF~~~~~~~vl~~l~~~L~pg 255 (287)
T PRK10611 204 NYVDFQQLNLLAKQWAVPGPFDAIFCRNVMIYFDKTTQERILRRFVPLLKPD 255 (287)
T ss_pred ccCEEEcccCCCCCCccCCCcceeeHhhHHhcCCHHHHHHHHHHHHHHhCCC
Confidence 579999999997 455 3 3 9999999999999999999999999999997
No 30
>PRK15068 tRNA mo(5)U34 methyltransferase; Provisional
Probab=95.60 E-value=0.043 Score=47.02 Aligned_cols=79 Identities=14% Similarity=0.093 Sum_probs=55.2
Q ss_pred CceEEccC--CccHHHHHHhCCCc------hH-HHHh--h----ccCCCceEEecCCCCc-ccCc-cceeeeehhccCCC
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM------NN-LFNQ--S----MHNHTVVEHVSGHMFI-EVPN-GQALFMKWILSDWD 195 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l------~~-v~~~--~----~~~~~rv~~~~gDff~-~~P~-~d~y~l~~ILHdw~ 195 (214)
..++|+|+ |..++.+++..|.. .. .+.+ + .....+|+++.+|+.+ +.+. -|+++...+||...
T Consensus 124 ~~VLDIGCG~G~~~~~la~~g~~~V~GiD~S~~~l~q~~a~~~~~~~~~~i~~~~~d~e~lp~~~~FD~V~s~~vl~H~~ 203 (322)
T PRK15068 124 RTVLDVGCGNGYHMWRMLGAGAKLVVGIDPSQLFLCQFEAVRKLLGNDQRAHLLPLGIEQLPALKAFDTVFSMGVLYHRR 203 (322)
T ss_pred CEEEEeccCCcHHHHHHHHcCCCEEEEEcCCHHHHHHHHHHHHhcCCCCCeEEEeCCHHHCCCcCCcCEEEECChhhccC
Confidence 56899997 66667777777652 11 1111 1 1124579999999864 3343 39999999998876
Q ss_pred hHHHHHHHHHhHHhcCCC
Q 042599 196 DEECLKILKNCCVQCNTG 213 (214)
Q Consensus 196 d~~~~~IL~~~~~Al~pg 213 (214)
|- ..+|+++++.|+||
T Consensus 204 dp--~~~L~~l~~~LkpG 219 (322)
T PRK15068 204 SP--LDHLKQLKDQLVPG 219 (322)
T ss_pred CH--HHHHHHHHHhcCCC
Confidence 64 46899999999997
No 31
>PRK07580 Mg-protoporphyrin IX methyl transferase; Validated
Probab=95.57 E-value=0.043 Score=44.06 Aligned_cols=80 Identities=10% Similarity=0.121 Sum_probs=55.3
Q ss_pred CceEEccC--CccHHHHHHhCCCc------hHHHHhhcc------CCCceEEecCCCCcccCc-cceeeeehhccCCChH
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM------NNLFNQSMH------NHTVVEHVSGHMFIEVPN-GQALFMKWILSDWDDE 197 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l------~~v~~~~~~------~~~rv~~~~gDff~~~P~-~d~y~l~~ILHdw~d~ 197 (214)
..++|+|+ |.....+++..+.. +..++.+.. ..++|+++.+| ++..+. -|+++...++|.|+++
T Consensus 65 ~~vLDvGcG~G~~~~~l~~~~~~v~~~D~s~~~i~~a~~~~~~~~~~~~i~~~~~d-~~~~~~~fD~v~~~~~l~~~~~~ 143 (230)
T PRK07580 65 LRILDAGCGVGSLSIPLARRGAKVVASDISPQMVEEARERAPEAGLAGNITFEVGD-LESLLGRFDTVVCLDVLIHYPQE 143 (230)
T ss_pred CEEEEEeCCCCHHHHHHHHcCCEEEEEECCHHHHHHHHHHHHhcCCccCcEEEEcC-chhccCCcCEEEEcchhhcCCHH
Confidence 46899996 55555666655433 223333221 12589999999 443333 4999999999999999
Q ss_pred HHHHHHHHhHHhcCCC
Q 042599 198 ECLKILKNCCVQCNTG 213 (214)
Q Consensus 198 ~~~~IL~~~~~Al~pg 213 (214)
+...+++++.+.++++
T Consensus 144 ~~~~~l~~l~~~~~~~ 159 (230)
T PRK07580 144 DAARMLAHLASLTRGS 159 (230)
T ss_pred HHHHHHHHHHhhcCCe
Confidence 9999999998876654
No 32
>PRK00216 ubiE ubiquinone/menaquinone biosynthesis methyltransferase; Reviewed
Probab=95.54 E-value=0.059 Score=43.31 Aligned_cols=79 Identities=19% Similarity=0.098 Sum_probs=55.7
Q ss_pred CceEEccC--CccHHHHHHhCC-Cc--------hHHHHhhcc------CCCceEEecCCCCc-ccCc--cceeeeehhcc
Q 042599 133 VPHTKAQS--GMDAFAAAAKDA-RM--------NNLFNQSMH------NHTVVEHVSGHMFI-EVPN--GQALFMKWILS 192 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P-~l--------~~v~~~~~~------~~~rv~~~~gDff~-~~P~--~d~y~l~~ILH 192 (214)
..++|+|+ |..+..++...| +. +..+..+.. ...+++++.+|+.+ +.+. -|++++..+||
T Consensus 53 ~~vldiG~G~G~~~~~l~~~~~~~~~v~~~D~s~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~D~I~~~~~l~ 132 (239)
T PRK00216 53 DKVLDLACGTGDLAIALAKAVGKTGEVVGLDFSEGMLAVGREKLRDLGLSGNVEFVQGDAEALPFPDNSFDAVTIAFGLR 132 (239)
T ss_pred CeEEEeCCCCCHHHHHHHHHcCCCCeEEEEeCCHHHHHHHHHhhcccccccCeEEEecccccCCCCCCCccEEEEecccc
Confidence 56899996 555566677666 21 223333222 13578999999986 3433 49999999999
Q ss_pred CCChHHHHHHHHHhHHhcCCC
Q 042599 193 DWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 193 dw~d~~~~~IL~~~~~Al~pg 213 (214)
.+++ ...+|+++.+.|+||
T Consensus 133 ~~~~--~~~~l~~~~~~L~~g 151 (239)
T PRK00216 133 NVPD--IDKALREMYRVLKPG 151 (239)
T ss_pred cCCC--HHHHHHHHHHhccCC
Confidence 9987 457899999999987
No 33
>PRK08317 hypothetical protein; Provisional
Probab=95.46 E-value=0.067 Score=42.83 Aligned_cols=79 Identities=18% Similarity=0.109 Sum_probs=56.5
Q ss_pred CceEEccC--CccHHHHHHhC-CCc--------hHHHHhhc----cCCCceEEecCCCCc-ccCc--cceeeeehhccCC
Q 042599 133 VPHTKAQS--GMDAFAAAAKD-ARM--------NNLFNQSM----HNHTVVEHVSGHMFI-EVPN--GQALFMKWILSDW 194 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~-P~l--------~~v~~~~~----~~~~rv~~~~gDff~-~~P~--~d~y~l~~ILHdw 194 (214)
..++|+|. |..+..++... |.. +..++.+. ....++++..+|+.+ +++. .|+++.++++|.+
T Consensus 21 ~~vLdiG~G~G~~~~~~a~~~~~~~~v~~~d~~~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~~~~D~v~~~~~~~~~ 100 (241)
T PRK08317 21 DRVLDVGCGPGNDARELARRVGPEGRVVGIDRSEAMLALAKERAAGLGPNVEFVRGDADGLPFPDGSFDAVRSDRVLQHL 100 (241)
T ss_pred CEEEEeCCCCCHHHHHHHHhcCCCcEEEEEeCCHHHHHHHHHHhhCCCCceEEEecccccCCCCCCCceEEEEechhhcc
Confidence 56899996 66666676665 432 22333322 224579999999874 5553 4999999999999
Q ss_pred ChHHHHHHHHHhHHhcCCC
Q 042599 195 DDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 195 ~d~~~~~IL~~~~~Al~pg 213 (214)
+|. ..+|+++.+.|+||
T Consensus 101 ~~~--~~~l~~~~~~L~~g 117 (241)
T PRK08317 101 EDP--ARALAEIARVLRPG 117 (241)
T ss_pred CCH--HHHHHHHHHHhcCC
Confidence 875 56799999999987
No 34
>PF01209 Ubie_methyltran: ubiE/COQ5 methyltransferase family; InterPro: IPR004033 A number of methyltransferases have been shown to share regions of similarities []. Apart from the ubiquinone/menaquinone biosynthesis methyltransferases (for example, the C-methyltransferase from the ubiE gene of Escherichia coli), the ubiquinone biosynthesis methyltransferases (for example, the C-methyltransferase from the COQ5 gene of Saccharomyces cerevisiae) and the menaquinone biosynthesis methyltransferases (for example, the C-methyltransferase from the MENH gene of Bacillus subtilis), this family also includes methyltransferases involved in biotin and sterol biosynthesis and in phosphatidylethanolamine methylation.; GO: 0008168 methyltransferase activity; PDB: 1VL5_C.
Probab=95.34 E-value=0.037 Score=45.22 Aligned_cols=79 Identities=15% Similarity=0.158 Sum_probs=50.4
Q ss_pred CceEEccC--CccHHHHHHhC-CCc--------hHHHHhhcc-----CCCceEEecCCCCc-ccCcc--ceeeeehhccC
Q 042599 133 VPHTKAQS--GMDAFAAAAKD-ARM--------NNLFNQSMH-----NHTVVEHVSGHMFI-EVPNG--QALFMKWILSD 193 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~-P~l--------~~v~~~~~~-----~~~rv~~~~gDff~-~~P~~--d~y~l~~ILHd 193 (214)
..++|+++ |..+..++++. |+- +..++.+.. ...+|+++.+|..+ |+|.. |++++...||+
T Consensus 49 ~~vLDv~~GtG~~~~~l~~~~~~~~~v~~vD~s~~ML~~a~~k~~~~~~~~i~~v~~da~~lp~~d~sfD~v~~~fglrn 128 (233)
T PF01209_consen 49 DRVLDVACGTGDVTRELARRVGPNGKVVGVDISPGMLEVARKKLKREGLQNIEFVQGDAEDLPFPDNSFDAVTCSFGLRN 128 (233)
T ss_dssp -EEEEET-TTSHHHHHHGGGSS---EEEEEES-HHHHHHHHHHHHHTT--SEEEEE-BTTB--S-TT-EEEEEEES-GGG
T ss_pred CEEEEeCCChHHHHHHHHHHCCCccEEEEecCCHHHHHHHHHHHHhhCCCCeeEEEcCHHHhcCCCCceeEEEHHhhHHh
Confidence 46899996 55566666654 321 233333321 23489999999986 77753 99999999999
Q ss_pred CChHHHHHHHHHhHHhcCCC
Q 042599 194 WDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 194 w~d~~~~~IL~~~~~Al~pg 213 (214)
.+|.. +.|+.+++.|+||
T Consensus 129 ~~d~~--~~l~E~~RVLkPG 146 (233)
T PF01209_consen 129 FPDRE--RALREMYRVLKPG 146 (233)
T ss_dssp -SSHH--HHHHHHHHHEEEE
T ss_pred hCCHH--HHHHHHHHHcCCC
Confidence 99854 5799999999997
No 35
>TIGR02752 MenG_heptapren 2-heptaprenyl-1,4-naphthoquinone methyltransferase. MenG is a generic term for a methyltransferase that catalyzes the last step in menaquinone biosynthesis; the exact enzymatic activity differs for different MenG because the menaquinone differ in their prenoid side chains in different species. Members of this MenG protein family are 2-heptaprenyl-1,4-naphthoquinone methyltransferase, and are found together in operons with the two subunits of the heptaprenyl diphosphate synthase in Bacillus subtilis and related species.
Probab=95.28 E-value=0.082 Score=42.61 Aligned_cols=79 Identities=14% Similarity=0.121 Sum_probs=55.4
Q ss_pred CceEEccC--CccHHHHHHhC-CCc--------hHHHHhhc-----cCCCceEEecCCCCc-ccCcc--ceeeeehhccC
Q 042599 133 VPHTKAQS--GMDAFAAAAKD-ARM--------NNLFNQSM-----HNHTVVEHVSGHMFI-EVPNG--QALFMKWILSD 193 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~-P~l--------~~v~~~~~-----~~~~rv~~~~gDff~-~~P~~--d~y~l~~ILHd 193 (214)
..++|+|. |..+..+.+.. |.. +..++.+. ...++++++.+|..+ ++|.+ |++++...+|.
T Consensus 47 ~~vLDiGcG~G~~~~~la~~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~fD~V~~~~~l~~ 126 (231)
T TIGR02752 47 TSALDVCCGTADWSIALAEAVGPEGHVIGLDFSENMLSVGRQKVKDAGLHNVELVHGNAMELPFDDNSFDYVTIGFGLRN 126 (231)
T ss_pred CEEEEeCCCcCHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHhcCCCceEEEEechhcCCCCCCCccEEEEeccccc
Confidence 57999997 55455566654 432 22332221 123579999999985 45643 99999999998
Q ss_pred CChHHHHHHHHHhHHhcCCC
Q 042599 194 WDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 194 w~d~~~~~IL~~~~~Al~pg 213 (214)
+++- .++|+++.+.|+||
T Consensus 127 ~~~~--~~~l~~~~~~Lk~g 144 (231)
T TIGR02752 127 VPDY--MQVLREMYRVVKPG 144 (231)
T ss_pred CCCH--HHHHHHHHHHcCcC
Confidence 8876 47899999999997
No 36
>PLN02336 phosphoethanolamine N-methyltransferase
Probab=95.21 E-value=0.051 Score=48.87 Aligned_cols=81 Identities=12% Similarity=0.190 Sum_probs=59.8
Q ss_pred CceEEccC--CccHHHHHHhCCCc------hHHHHhhcc---CCCceEEecCCCCc---ccCc--cceeeeehhccCCCh
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM------NNLFNQSMH---NHTVVEHVSGHMFI---EVPN--GQALFMKWILSDWDD 196 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l------~~v~~~~~~---~~~rv~~~~gDff~---~~P~--~d~y~l~~ILHdw~d 196 (214)
..++|+|. |..+..+.+...++ +..++.+.. ..++++++.+|+.+ ++|. -|+++...++|.++|
T Consensus 39 ~~vLDlGcG~G~~~~~la~~~~~v~giD~s~~~l~~a~~~~~~~~~i~~~~~d~~~~~~~~~~~~fD~I~~~~~l~~l~~ 118 (475)
T PLN02336 39 KSVLELGAGIGRFTGELAKKAGQVIALDFIESVIKKNESINGHYKNVKFMCADVTSPDLNISDGSVDLIFSNWLLMYLSD 118 (475)
T ss_pred CEEEEeCCCcCHHHHHHHhhCCEEEEEeCCHHHHHHHHHHhccCCceEEEEecccccccCCCCCCEEEEehhhhHHhCCH
Confidence 46899996 66666666655433 233333321 23578999999963 4554 399999999999999
Q ss_pred HHHHHHHHHhHHhcCCC
Q 042599 197 EECLKILKNCCVQCNTG 213 (214)
Q Consensus 197 ~~~~~IL~~~~~Al~pg 213 (214)
++..++|+++++.|+||
T Consensus 119 ~~~~~~l~~~~r~Lk~g 135 (475)
T PLN02336 119 KEVENLAERMVKWLKVG 135 (475)
T ss_pred HHHHHHHHHHHHhcCCC
Confidence 99999999999999987
No 37
>TIGR02021 BchM-ChlM magnesium protoporphyrin O-methyltransferase. This model represents the S-adenosylmethionine-dependent O-methyltransferase responsible for methylation of magnesium protoporphyrin IX. This step is essentiasl for the biosynthesis of both chlorophyll and bacteriochlorophyll. This model encompasses two closely related clades, from cyanobacteria (and plants) where it is called ChlM and other photosynthetic bacteria where it is known as BchM.
Probab=95.09 E-value=0.13 Score=41.25 Aligned_cols=82 Identities=11% Similarity=0.065 Sum_probs=56.7
Q ss_pred CCceEEccC--CccHHHHHHhCCCc------hHHHHhhcc----C--CCceEEecCCCCcccCccceeeeehhccCCChH
Q 042599 132 SVPHTKAQS--GMDAFAAAAKDARM------NNLFNQSMH----N--HTVVEHVSGHMFIEVPNGQALFMKWILSDWDDE 197 (214)
Q Consensus 132 ~~~~~dvgG--G~~~~~~~~~~P~l------~~v~~~~~~----~--~~rv~~~~gDff~~~P~~d~y~l~~ILHdw~d~ 197 (214)
...++|+|. |..+..+.+....+ +..+..+.. . ..++++..+|+.+...+-|+++...++|.++++
T Consensus 56 ~~~vLDiGcG~G~~~~~la~~~~~v~gvD~s~~~i~~a~~~~~~~~~~~~i~~~~~d~~~~~~~fD~ii~~~~l~~~~~~ 135 (219)
T TIGR02021 56 GKRVLDAGCGTGLLSIELAKRGAIVKAVDISEQMVQMARNRAQGRDVAGNVEFEVNDLLSLCGEFDIVVCMDVLIHYPAS 135 (219)
T ss_pred CCEEEEEeCCCCHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHhcCCCCceEEEECChhhCCCCcCEEEEhhHHHhCCHH
Confidence 356899996 55555565554332 233433321 1 247999999987533335999999999999988
Q ss_pred HHHHHHHHhHHhcCCC
Q 042599 198 ECLKILKNCCVQCNTG 213 (214)
Q Consensus 198 ~~~~IL~~~~~Al~pg 213 (214)
+-.++++++.+.++++
T Consensus 136 ~~~~~l~~i~~~~~~~ 151 (219)
T TIGR02021 136 DMAKALGHLASLTKER 151 (219)
T ss_pred HHHHHHHHHHHHhCCC
Confidence 8889999999887765
No 38
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=94.97 E-value=0.034 Score=42.56 Aligned_cols=46 Identities=20% Similarity=0.271 Sum_probs=38.9
Q ss_pred CceEEecCCCCc-ccCcc--ceeeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 166 TVVEHVSGHMFI-EVPNG--QALFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 166 ~rv~~~~gDff~-~~P~~--d~y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
.+|+++.+|..+ |.+.+ |++++..+||+|+|. .+.|+++++.|+||
T Consensus 26 ~~i~~~~~d~~~lp~~~~~fD~v~~~~~l~~~~d~--~~~l~ei~rvLkpG 74 (160)
T PLN02232 26 KCIEWIEGDAIDLPFDDCEFDAVTMGYGLRNVVDR--LRAMKEMYRVLKPG 74 (160)
T ss_pred CceEEEEechhhCCCCCCCeeEEEecchhhcCCCH--HHHHHHHHHHcCcC
Confidence 479999999875 45543 999999999999754 58999999999998
No 39
>PLN02244 tocopherol O-methyltransferase
Probab=94.86 E-value=0.13 Score=44.39 Aligned_cols=79 Identities=10% Similarity=-0.006 Sum_probs=55.9
Q ss_pred CceEEccC--CccHHHHHHhCC-Cc------hHHHHhhc------cCCCceEEecCCCCc-ccCcc--ceeeeehhccCC
Q 042599 133 VPHTKAQS--GMDAFAAAAKDA-RM------NNLFNQSM------HNHTVVEHVSGHMFI-EVPNG--QALFMKWILSDW 194 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P-~l------~~v~~~~~------~~~~rv~~~~gDff~-~~P~~--d~y~l~~ILHdw 194 (214)
..++|+|. |..+..+++++. ++ +..++.+. ...++|+++.+|+.+ ++|.+ |+++....+|.+
T Consensus 120 ~~VLDiGCG~G~~~~~La~~~g~~v~gvD~s~~~i~~a~~~~~~~g~~~~v~~~~~D~~~~~~~~~~FD~V~s~~~~~h~ 199 (340)
T PLN02244 120 KRIVDVGCGIGGSSRYLARKYGANVKGITLSPVQAARANALAAAQGLSDKVSFQVADALNQPFEDGQFDLVWSMESGEHM 199 (340)
T ss_pred CeEEEecCCCCHHHHHHHHhcCCEEEEEECCHHHHHHHHHHHHhcCCCCceEEEEcCcccCCCCCCCccEEEECCchhcc
Confidence 45899996 655666666542 22 12222221 123579999999985 56643 999999999999
Q ss_pred ChHHHHHHHHHhHHhcCCC
Q 042599 195 DDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 195 ~d~~~~~IL~~~~~Al~pg 213 (214)
+|. .++|+++++.|+||
T Consensus 200 ~d~--~~~l~e~~rvLkpG 216 (340)
T PLN02244 200 PDK--RKFVQELARVAAPG 216 (340)
T ss_pred CCH--HHHHHHHHHHcCCC
Confidence 874 58899999999997
No 40
>KOG1540 consensus Ubiquinone biosynthesis methyltransferase COQ5 [Coenzyme transport and metabolism]
Probab=94.80 E-value=0.13 Score=42.52 Aligned_cols=79 Identities=14% Similarity=0.116 Sum_probs=57.8
Q ss_pred CceEEccC--CccHHHHHHhCCCc--------------hHHHH----hhc----cCCCceEEecCCCCc-ccCc--ccee
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM--------------NNLFN----QSM----HNHTVVEHVSGHMFI-EVPN--GQAL 185 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l--------------~~v~~----~~~----~~~~rv~~~~gDff~-~~P~--~d~y 185 (214)
..++|++| |..+|.++++-+.. +..++ +++ ...++++++.+|-=+ |+|. .|.|
T Consensus 102 m~~lDvaGGTGDiaFril~~v~s~~~~~~~~V~v~Dinp~mL~vgkqRa~~~~l~~~~~~~w~~~dAE~LpFdd~s~D~y 181 (296)
T KOG1540|consen 102 MKVLDVAGGTGDIAFRILRHVKSQFGDRESKVTVLDINPHMLAVGKQRAKKRPLKASSRVEWVEGDAEDLPFDDDSFDAY 181 (296)
T ss_pred CeEEEecCCcchhHHHHHHhhccccCCCCceEEEEeCCHHHHHHHHHHHhhcCCCcCCceEEEeCCcccCCCCCCcceeE
Confidence 45899987 67788877654431 12222 121 124579999999876 7884 4999
Q ss_pred eeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 186 FMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 186 ~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
.+..=+.+|+|-+ +.|+..++.|+||
T Consensus 182 TiafGIRN~th~~--k~l~EAYRVLKpG 207 (296)
T KOG1540|consen 182 TIAFGIRNVTHIQ--KALREAYRVLKPG 207 (296)
T ss_pred EEecceecCCCHH--HHHHHHHHhcCCC
Confidence 9999999999864 7899999999998
No 41
>PRK15001 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional
Probab=94.64 E-value=0.13 Score=45.17 Aligned_cols=81 Identities=9% Similarity=0.008 Sum_probs=59.3
Q ss_pred CceEEccC--CccHHHHHHhCCCch--------HHHHhhcc--------CCCceEEecCCCCcccCc--cceeeee---h
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARMN--------NLFNQSMH--------NHTVVEHVSGHMFIEVPN--GQALFMK---W 189 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l~--------~v~~~~~~--------~~~rv~~~~gDff~~~P~--~d~y~l~---~ 189 (214)
..++|+|. |.....+++++|+.. ..++.+.. ...+++++.+|.++.++. -|+++.- +
T Consensus 230 ~~VLDLGCGtGvi~i~la~~~P~~~V~~vD~S~~Av~~A~~N~~~n~~~~~~~v~~~~~D~l~~~~~~~fDlIlsNPPfh 309 (378)
T PRK15001 230 GEIVDLGCGNGVIGLTLLDKNPQAKVVFVDESPMAVASSRLNVETNMPEALDRCEFMINNALSGVEPFRFNAVLCNPPFH 309 (378)
T ss_pred CeEEEEeccccHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCcccCceEEEEEccccccCCCCCEEEEEECcCcc
Confidence 36899996 666667788899641 22322221 124799999999987753 4988884 5
Q ss_pred hccCCChHHHHHHHHHhHHhcCCC
Q 042599 190 ILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 190 ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
..|.++++.+.++++++++.|+||
T Consensus 310 ~~~~~~~~ia~~l~~~a~~~LkpG 333 (378)
T PRK15001 310 QQHALTDNVAWEMFHHARRCLKIN 333 (378)
T ss_pred cCccCCHHHHHHHHHHHHHhcccC
Confidence 566688888999999999999997
No 42
>TIGR00477 tehB tellurite resistance protein TehB. Part of a tellurite-reducing operon tehA and tehB
Probab=94.54 E-value=0.16 Score=40.07 Aligned_cols=81 Identities=6% Similarity=0.045 Sum_probs=54.7
Q ss_pred CceEEccC--CccHHHHHHhCCCc------hHHHHhhc----cCCCceEEecCCCCc-ccCc-cceeeeehhccCCChHH
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM------NNLFNQSM----HNHTVVEHVSGHMFI-EVPN-GQALFMKWILSDWDDEE 198 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l------~~v~~~~~----~~~~rv~~~~gDff~-~~P~-~d~y~l~~ILHdw~d~~ 198 (214)
..++|+|. |..+..++++.-++ +..++.+. ...-.++...+|+.+ +.++ -|+++...++|..++++
T Consensus 32 ~~vLDiGcG~G~~a~~la~~g~~V~~iD~s~~~l~~a~~~~~~~~~~v~~~~~d~~~~~~~~~fD~I~~~~~~~~~~~~~ 111 (195)
T TIGR00477 32 CKTLDLGCGQGRNSLYLSLAGYDVRAWDHNPASIASVLDMKARENLPLRTDAYDINAAALNEDYDFIFSTVVFMFLQAGR 111 (195)
T ss_pred CcEEEeCCCCCHHHHHHHHCCCeEEEEECCHHHHHHHHHHHHHhCCCceeEeccchhccccCCCCEEEEecccccCCHHH
Confidence 46899996 55555555543222 22232221 111136777778754 3343 49999999999999999
Q ss_pred HHHHHHHhHHhcCCC
Q 042599 199 CLKILKNCCVQCNTG 213 (214)
Q Consensus 199 ~~~IL~~~~~Al~pg 213 (214)
...+++++++.|+||
T Consensus 112 ~~~~l~~~~~~Lkpg 126 (195)
T TIGR00477 112 VPEIIANMQAHTRPG 126 (195)
T ss_pred HHHHHHHHHHHhCCC
Confidence 999999999999997
No 43
>PRK12335 tellurite resistance protein TehB; Provisional
Probab=94.43 E-value=0.16 Score=42.61 Aligned_cols=81 Identities=11% Similarity=0.043 Sum_probs=57.0
Q ss_pred CceEEccC--CccHHHHHHhCCCc------hHHHHhhc----cCCCceEEecCCCCcc-cCc-cceeeeehhccCCChHH
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM------NNLFNQSM----HNHTVVEHVSGHMFIE-VPN-GQALFMKWILSDWDDEE 198 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l------~~v~~~~~----~~~~rv~~~~gDff~~-~P~-~d~y~l~~ILHdw~d~~ 198 (214)
..++|+|. |..+..+++..-++ +..++.+. ...-.+++..+|+.+. ++. -|+++...+||-.++++
T Consensus 122 ~~vLDlGcG~G~~~~~la~~g~~V~avD~s~~ai~~~~~~~~~~~l~v~~~~~D~~~~~~~~~fD~I~~~~vl~~l~~~~ 201 (287)
T PRK12335 122 GKALDLGCGQGRNSLYLALLGFDVTAVDINQQSLENLQEIAEKENLNIRTGLYDINSASIQEEYDFILSTVVLMFLNRER 201 (287)
T ss_pred CCEEEeCCCCCHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHcCCceEEEEechhcccccCCccEEEEcchhhhCCHHH
Confidence 47899996 55555555543322 22233221 1122688888898754 333 49999999999999999
Q ss_pred HHHHHHHhHHhcCCC
Q 042599 199 CLKILKNCCVQCNTG 213 (214)
Q Consensus 199 ~~~IL~~~~~Al~pg 213 (214)
...+|+++.+.++||
T Consensus 202 ~~~~l~~~~~~Lkpg 216 (287)
T PRK12335 202 IPAIIKNMQEHTNPG 216 (287)
T ss_pred HHHHHHHHHHhcCCC
Confidence 999999999999997
No 44
>PRK11873 arsM arsenite S-adenosylmethyltransferase; Reviewed
Probab=94.29 E-value=0.19 Score=41.69 Aligned_cols=79 Identities=18% Similarity=0.251 Sum_probs=53.6
Q ss_pred CceEEccC--CccHHHHHHh-CCC--c------hHHHHhhcc-----CCCceEEecCCCCc-ccCc-c-ceeeeehhccC
Q 042599 133 VPHTKAQS--GMDAFAAAAK-DAR--M------NNLFNQSMH-----NHTVVEHVSGHMFI-EVPN-G-QALFMKWILSD 193 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~-~P~--l------~~v~~~~~~-----~~~rv~~~~gDff~-~~P~-~-d~y~l~~ILHd 193 (214)
..++|+|. |..++.+++. .|. + +..++.+.. ..++++++.+|+.+ ++|. . |+++...++|.
T Consensus 79 ~~VLDiG~G~G~~~~~~a~~~g~~~~v~gvD~s~~~l~~A~~~~~~~g~~~v~~~~~d~~~l~~~~~~fD~Vi~~~v~~~ 158 (272)
T PRK11873 79 ETVLDLGSGGGFDCFLAARRVGPTGKVIGVDMTPEMLAKARANARKAGYTNVEFRLGEIEALPVADNSVDVIISNCVINL 158 (272)
T ss_pred CEEEEeCCCCCHHHHHHHHHhCCCCEEEEECCCHHHHHHHHHHHHHcCCCCEEEEEcchhhCCCCCCceeEEEEcCcccC
Confidence 56899986 5444444443 232 1 223333321 23589999999875 5554 3 99999999998
Q ss_pred CChHHHHHHHHHhHHhcCCC
Q 042599 194 WDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 194 w~d~~~~~IL~~~~~Al~pg 213 (214)
++|. .++|+++.+.|+||
T Consensus 159 ~~d~--~~~l~~~~r~LkpG 176 (272)
T PRK11873 159 SPDK--ERVFKEAFRVLKPG 176 (272)
T ss_pred CCCH--HHHHHHHHHHcCCC
Confidence 8765 46899999999997
No 45
>cd02440 AdoMet_MTases S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). There are at least five structurally distinct families of AdoMet-MTases, class I being the largest and most diverse. Within this class enzymes can be classified by different substrate specificities (small molecules, lipids, nucleic acids, etc.) and different target atoms for methylation (nitrogen, oxygen, carbon, sulfur, etc.).
Probab=94.05 E-value=0.28 Score=32.83 Aligned_cols=48 Identities=15% Similarity=0.037 Sum_probs=40.7
Q ss_pred CCceEEecCCCCccc---C-ccceeeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 165 HTVVEHVSGHMFIEV---P-NGQALFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 165 ~~rv~~~~gDff~~~---P-~~d~y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
..+++++.+|+.+.. + +.|+++....+|.+ .+....+++++.+.|+||
T Consensus 46 ~~~~~~~~~~~~~~~~~~~~~~d~i~~~~~~~~~-~~~~~~~l~~~~~~l~~~ 97 (107)
T cd02440 46 ADNVEVLKGDAEELPPEADESFDVIISDPPLHHL-VEDLARFLEEARRLLKPG 97 (107)
T ss_pred ccceEEEEcChhhhccccCCceEEEEEccceeeh-hhHHHHHHHHHHHHcCCC
Confidence 467999999999754 2 35999999999987 789999999999999886
No 46
>PF08123 DOT1: Histone methylation protein DOT1 ; InterPro: IPR013110 The DOT1 domain regulates gene expression by methylating histone H3 []. H3 methylation by DOT1 has been shown to be required for the DNA damage checkpoint in yeast [].; GO: 0018024 histone-lysine N-methyltransferase activity; PDB: 4ER3_A 4ER6_A 4EQZ_A 1NW3_A 3UWP_A 4ER5_A 3QOX_A 3SX0_A 4ER7_A 3SR4_A ....
Probab=94.04 E-value=0.11 Score=41.69 Aligned_cols=46 Identities=15% Similarity=0.266 Sum_probs=29.0
Q ss_pred CCceEEecCCCCcc------cCccceeeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 165 HTVVEHVSGHMFIE------VPNGQALFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 165 ~~rv~~~~gDff~~------~P~~d~y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
..+|++..|||+++ +.+||++|+.+.+ |+++-..+| ++....|++|
T Consensus 100 ~~~v~l~~gdfl~~~~~~~~~s~AdvVf~Nn~~--F~~~l~~~L-~~~~~~lk~G 151 (205)
T PF08123_consen 100 PGKVELIHGDFLDPDFVKDIWSDADVVFVNNTC--FDPDLNLAL-AELLLELKPG 151 (205)
T ss_dssp --EEEEECS-TTTHHHHHHHGHC-SEEEE--TT--T-HHHHHHH-HHHHTTS-TT
T ss_pred cccceeeccCccccHhHhhhhcCCCEEEEeccc--cCHHHHHHH-HHHHhcCCCC
Confidence 46799999999963 2358999999875 777766666 6666788987
No 47
>PLN02336 phosphoethanolamine N-methyltransferase
Probab=94.01 E-value=0.26 Score=44.36 Aligned_cols=79 Identities=11% Similarity=0.139 Sum_probs=54.5
Q ss_pred CceEEccC--CccHHHHHHhCC-Cc------hHHHHhhc----cCCCceEEecCCCCc-ccCcc--ceeeeehhccCCCh
Q 042599 133 VPHTKAQS--GMDAFAAAAKDA-RM------NNLFNQSM----HNHTVVEHVSGHMFI-EVPNG--QALFMKWILSDWDD 196 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P-~l------~~v~~~~~----~~~~rv~~~~gDff~-~~P~~--d~y~l~~ILHdw~d 196 (214)
..++|+|. |..+..+++... .. +..+..+. ....+|+++.+|+++ ++|.+ |+++...++|.++|
T Consensus 268 ~~vLDiGcG~G~~~~~la~~~~~~v~gvDiS~~~l~~A~~~~~~~~~~v~~~~~d~~~~~~~~~~fD~I~s~~~l~h~~d 347 (475)
T PLN02336 268 QKVLDVGCGIGGGDFYMAENFDVHVVGIDLSVNMISFALERAIGRKCSVEFEVADCTKKTYPDNSFDVIYSRDTILHIQD 347 (475)
T ss_pred CEEEEEeccCCHHHHHHHHhcCCEEEEEECCHHHHHHHHHHhhcCCCceEEEEcCcccCCCCCCCEEEEEECCcccccCC
Confidence 46899996 544444554432 11 22232222 223579999999996 56643 99999999998887
Q ss_pred HHHHHHHHHhHHhcCCC
Q 042599 197 EECLKILKNCCVQCNTG 213 (214)
Q Consensus 197 ~~~~~IL~~~~~Al~pg 213 (214)
. .++|+++++.|+||
T Consensus 348 ~--~~~l~~~~r~Lkpg 362 (475)
T PLN02336 348 K--PALFRSFFKWLKPG 362 (475)
T ss_pred H--HHHHHHHHHHcCCC
Confidence 5 47899999999998
No 48
>TIGR02072 BioC biotin biosynthesis protein BioC. This enzyme, which is found in biotin biosynthetic gene clusters in proteobacteria, firmicutes, green-sulfur bacteria, fusobacterium and bacteroides, is believed to carry out an enzymatic step prior to the formation of pimeloyl-CoA (although attribution of this annotation is not traceable). The enzyme appears related to methyltransferases by homology.
Probab=93.87 E-value=0.2 Score=40.16 Aligned_cols=79 Identities=13% Similarity=0.060 Sum_probs=54.9
Q ss_pred CceEEccC--CccHHHHHHhCCCc--------hHHHHhhcc-CCCceEEecCCCCc-ccCc--cceeeeehhccCCChHH
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMH-NHTVVEHVSGHMFI-EVPN--GQALFMKWILSDWDDEE 198 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~-~~~rv~~~~gDff~-~~P~--~d~y~l~~ILHdw~d~~ 198 (214)
..++|+|+ |.....+.+..|.. +..++.+.. ..++++++.+|+.+ +.|. -|+++...++|.-+|
T Consensus 36 ~~vLDlG~G~G~~~~~l~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~fD~vi~~~~l~~~~~-- 113 (240)
T TIGR02072 36 ASVLDIGCGTGYLTRALLKRFPQAEFIALDISAGMLAQAKTKLSENVQFICGDAEKLPLEDSSFDLIVSNLALQWCDD-- 113 (240)
T ss_pred CeEEEECCCccHHHHHHHHhCCCCcEEEEeChHHHHHHHHHhcCCCCeEEecchhhCCCCCCceeEEEEhhhhhhccC--
Confidence 35899996 55555677776643 223332222 12478999999985 4453 399999999996655
Q ss_pred HHHHHHHhHHhcCCC
Q 042599 199 CLKILKNCCVQCNTG 213 (214)
Q Consensus 199 ~~~IL~~~~~Al~pg 213 (214)
-.++|+++.+.|+||
T Consensus 114 ~~~~l~~~~~~L~~~ 128 (240)
T TIGR02072 114 LSQALSELARVLKPG 128 (240)
T ss_pred HHHHHHHHHHHcCCC
Confidence 457899999999987
No 49
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=93.67 E-value=0.058 Score=36.17 Aligned_cols=42 Identities=14% Similarity=0.202 Sum_probs=34.8
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccC
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFF 71 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~ 71 (214)
|+..++++...+.+.|..|...|+++.. ++.|..|+-+..++
T Consensus 25 i~~~~~L~~~~~~~yL~~L~~~gLI~~~----------~~~Y~lTekG~~~l 66 (77)
T PF14947_consen 25 IMYKANLNYSTLKKYLKELEEKGLIKKK----------DGKYRLTEKGKEFL 66 (77)
T ss_dssp HHTTST--HHHHHHHHHHHHHTTSEEEE----------TTEEEE-HHHHHHH
T ss_pred HHHHhCcCHHHHHHHHHHHHHCcCeeCC----------CCEEEECccHHHHH
Confidence 7788999999999999999999999764 78999999987654
No 50
>PF09339 HTH_IclR: IclR helix-turn-helix domain; InterPro: IPR005471 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these subfamilies, called 'iclR', groups several proteins including: gylR, a possible activator protein for the gylABX glycerol operon in Streptomyces. iclR, the repressor of the acetate operon (also known as glyoxylate bypass operon) in Escherichia coli and Salmonella typhimurium. These proteins have a Helix-Turn-Helix motif at the N terminus that is similar to that of other DNA-binding proteins [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1MKM_A 3MQ0_A 3R4K_A 2G7U_C 2O0Y_C 2XRO_F 2XRN_B 2IA2_D.
Probab=93.08 E-value=0.023 Score=34.95 Aligned_cols=28 Identities=11% Similarity=0.221 Sum_probs=25.7
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+++|++...+.|+|..|+..|+++++
T Consensus 24 ia~~~gl~~stv~r~L~tL~~~g~v~~d 51 (52)
T PF09339_consen 24 IARALGLPKSTVHRLLQTLVEEGYVERD 51 (52)
T ss_dssp HHHHHTS-HHHHHHHHHHHHHTTSEEEC
T ss_pred HHHHHCcCHHHHHHHHHHHHHCcCeecC
Confidence 8889999999999999999999999985
No 51
>PLN02396 hexaprenyldihydroxybenzoate methyltransferase
Probab=93.06 E-value=0.15 Score=43.72 Aligned_cols=79 Identities=8% Similarity=-0.020 Sum_probs=52.2
Q ss_pred CceEEccC--CccHHHHHHhCCCc------hHHHHhhcc------CCCceEEecCCCCc-ccCc--cceeeeehhccCCC
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM------NNLFNQSMH------NHTVVEHVSGHMFI-EVPN--GQALFMKWILSDWD 195 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l------~~v~~~~~~------~~~rv~~~~gDff~-~~P~--~d~y~l~~ILHdw~ 195 (214)
..++|+|. |..+..+++..-++ +..++.+.. ...+|+++.+|+-+ +.+. -|+++...+||.++
T Consensus 133 ~~ILDIGCG~G~~s~~La~~g~~V~GID~s~~~i~~Ar~~~~~~~~~~~i~~~~~dae~l~~~~~~FD~Vi~~~vLeHv~ 212 (322)
T PLN02396 133 LKFIDIGCGGGLLSEPLARMGATVTGVDAVDKNVKIARLHADMDPVTSTIEYLCTTAEKLADEGRKFDAVLSLEVIEHVA 212 (322)
T ss_pred CEEEEeeCCCCHHHHHHHHcCCEEEEEeCCHHHHHHHHHHHHhcCcccceeEEecCHHHhhhccCCCCEEEEhhHHHhcC
Confidence 36899996 44444444322121 223333221 12479999999754 3333 39999999999999
Q ss_pred hHHHHHHHHHhHHhcCCC
Q 042599 196 DEECLKILKNCCVQCNTG 213 (214)
Q Consensus 196 d~~~~~IL~~~~~Al~pg 213 (214)
|.. .+|+.+++.|+||
T Consensus 213 d~~--~~L~~l~r~LkPG 228 (322)
T PLN02396 213 NPA--EFCKSLSALTIPN 228 (322)
T ss_pred CHH--HHHHHHHHHcCCC
Confidence 874 7999999999997
No 52
>PF05891 Methyltransf_PK: AdoMet dependent proline di-methyltransferase; InterPro: IPR008576 This family consists of several eukaryotic proteins of unknown function that are S-adenosyl-L-methionine-dependent methyltransferase-like.; GO: 0008168 methyltransferase activity; PDB: 1XTP_A 2EX4_B.
Probab=93.05 E-value=0.066 Score=43.15 Aligned_cols=31 Identities=23% Similarity=0.576 Sum_probs=28.1
Q ss_pred ceeeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 183 QALFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 183 d~y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
|+++..|++-..+|++.+..|++|+++|+|+
T Consensus 124 DlIW~QW~lghLTD~dlv~fL~RCk~~L~~~ 154 (218)
T PF05891_consen 124 DLIWIQWCLGHLTDEDLVAFLKRCKQALKPN 154 (218)
T ss_dssp EEEEEES-GGGS-HHHHHHHHHHHHHHEEEE
T ss_pred eEEEehHhhccCCHHHHHHHHHHHHHhCcCC
Confidence 9999999999999999999999999999875
No 53
>TIGR03840 TMPT_Se_Te thiopurine S-methyltransferase, Se/Te detoxification family. Members of this family are thiopurine S-methyltransferase from a branch in which at least some member proteins can perform selenium methylation as a means to detoxify selenium, or perform a related detoxification of tellurium. Note that the EC number definition does not specify a particular thiopurine, but rather represents a class of activity.
Probab=92.93 E-value=0.6 Score=37.56 Aligned_cols=48 Identities=17% Similarity=0.177 Sum_probs=42.1
Q ss_pred CceEEecCCCCcccC--cc--ceeeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 166 TVVEHVSGHMFIEVP--NG--QALFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 166 ~rv~~~~gDff~~~P--~~--d~y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
.+|+++.+|+|+..+ .+ |+++-+.++|..+.+.-.+.++++.++|+||
T Consensus 94 ~~v~~~~~D~~~~~~~~~~~fD~i~D~~~~~~l~~~~R~~~~~~l~~lLkpg 145 (213)
T TIGR03840 94 GNIEIFCGDFFALTAADLGPVDAVYDRAALIALPEEMRQRYAAHLLALLPPG 145 (213)
T ss_pred CceEEEEccCCCCCcccCCCcCEEEechhhccCCHHHHHHHHHHHHHHcCCC
Confidence 579999999997543 23 9999999999999999999999999999997
No 54
>TIGR00452 methyltransferase, putative. Known examples to date are restricted to the proteobacteria.
Probab=92.47 E-value=0.46 Score=40.64 Aligned_cols=78 Identities=13% Similarity=-0.004 Sum_probs=52.9
Q ss_pred CceEEccC--CccHHHHHHhCCCc-------hHHHHh------hccCCCceEEecCCCCcccC--c-cceeeeehhccCC
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM-------NNLFNQ------SMHNHTVVEHVSGHMFIEVP--N-GQALFMKWILSDW 194 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l-------~~v~~~------~~~~~~rv~~~~gDff~~~P--~-~d~y~l~~ILHdw 194 (214)
..++|+|. |..++.++...+.. +..+.+ ......++.+..+|+-+ +| . -|+++...+||.+
T Consensus 123 ~~VLDvGCG~G~~~~~~~~~g~~~v~GiDpS~~ml~q~~~~~~~~~~~~~v~~~~~~ie~-lp~~~~FD~V~s~gvL~H~ 201 (314)
T TIGR00452 123 RTILDVGCGSGYHMWRMLGHGAKSLVGIDPTVLFLCQFEAVRKLLDNDKRAILEPLGIEQ-LHELYAFDTVFSMGVLYHR 201 (314)
T ss_pred CEEEEeccCCcHHHHHHHHcCCCEEEEEcCCHHHHHHHHHHHHHhccCCCeEEEECCHHH-CCCCCCcCEEEEcchhhcc
Confidence 56899996 55556666666642 111111 11234678888887643 33 2 3999999999998
Q ss_pred ChHHHHHHHHHhHHhcCCC
Q 042599 195 DDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 195 ~d~~~~~IL~~~~~Al~pg 213 (214)
++. ...|++++++|+||
T Consensus 202 ~dp--~~~L~el~r~LkpG 218 (314)
T TIGR00452 202 KSP--LEHLKQLKHQLVIK 218 (314)
T ss_pred CCH--HHHHHHHHHhcCCC
Confidence 765 56899999999997
No 55
>PRK08287 cobalt-precorrin-6Y C(15)-methyltransferase; Validated
Probab=92.32 E-value=0.55 Score=36.59 Aligned_cols=76 Identities=14% Similarity=0.173 Sum_probs=51.3
Q ss_pred CceEEccC--CccHHHHHHhCCCc--------hHHHHhhcc-----CCCceEEecCCCCcccCc-cceeeeehhccCCCh
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMH-----NHTVVEHVSGHMFIEVPN-GQALFMKWILSDWDD 196 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~-----~~~rv~~~~gDff~~~P~-~d~y~l~~ILHdw~d 196 (214)
..++|+|. |.....+++++|+. +..++.+.. ...+|+++.+|...+.+. -|++++....+++
T Consensus 33 ~~vLDiG~G~G~~~~~la~~~~~~~v~~vD~s~~~~~~a~~n~~~~~~~~i~~~~~d~~~~~~~~~D~v~~~~~~~~~-- 110 (187)
T PRK08287 33 KHLIDVGAGTGSVSIEAALQFPSLQVTAIERNPDALRLIKENRQRFGCGNIDIIPGEAPIELPGKADAIFIGGSGGNL-- 110 (187)
T ss_pred CEEEEECCcCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHhCCCCeEEEecCchhhcCcCCCEEEECCCccCH--
Confidence 46899996 55556677777743 233333221 135799999998765654 4999987655443
Q ss_pred HHHHHHHHHhHHhcCCC
Q 042599 197 EECLKILKNCCVQCNTG 213 (214)
Q Consensus 197 ~~~~~IL~~~~~Al~pg 213 (214)
..+++.+.+.|+||
T Consensus 111 ---~~~l~~~~~~Lk~g 124 (187)
T PRK08287 111 ---TAIIDWSLAHLHPG 124 (187)
T ss_pred ---HHHHHHHHHhcCCC
Confidence 46889999999887
No 56
>COG1352 CheR Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]
Probab=92.23 E-value=0.2 Score=41.83 Aligned_cols=48 Identities=19% Similarity=0.340 Sum_probs=43.1
Q ss_pred CceEEecCCCCcccC--cc-ceeeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 166 TVVEHVSGHMFIEVP--NG-QALFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 166 ~rv~~~~gDff~~~P--~~-d~y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
..|.|-.||.+++-| +. |+++.|+||=-++.+.-.+||++.+++|+||
T Consensus 184 ~~V~F~~~NLl~~~~~~~~fD~IfCRNVLIYFd~~~q~~il~~f~~~L~~g 234 (268)
T COG1352 184 KMVRFRRHNLLDDSPFLGKFDLIFCRNVLIYFDEETQERILRRFADSLKPG 234 (268)
T ss_pred cccEEeecCCCCCccccCCCCEEEEcceEEeeCHHHHHHHHHHHHHHhCCC
Confidence 359999999997553 44 9999999999999999999999999999997
No 57
>PRK10258 biotin biosynthesis protein BioC; Provisional
Probab=92.21 E-value=0.42 Score=39.07 Aligned_cols=79 Identities=8% Similarity=0.038 Sum_probs=51.3
Q ss_pred CceEEccC--CccHHHHHHhCCCc------hHHHHhhccCCCceEEecCCCCc-ccCc--cceeeeehhccCCChHHHHH
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM------NNLFNQSMHNHTVVEHVSGHMFI-EVPN--GQALFMKWILSDWDDEECLK 201 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l------~~v~~~~~~~~~rv~~~~gDff~-~~P~--~d~y~l~~ILHdw~d~~~~~ 201 (214)
..++|+|. |..+..+.+....+ +..++.+......+.++.+|+-+ ++|. -|+++....+|..+| ...
T Consensus 44 ~~vLDiGcG~G~~~~~l~~~~~~v~~~D~s~~~l~~a~~~~~~~~~~~~d~~~~~~~~~~fD~V~s~~~l~~~~d--~~~ 121 (251)
T PRK10258 44 THVLDAGCGPGWMSRYWRERGSQVTALDLSPPMLAQARQKDAADHYLAGDIESLPLATATFDLAWSNLAVQWCGN--LST 121 (251)
T ss_pred CeEEEeeCCCCHHHHHHHHcCCeEEEEECCHHHHHHHHhhCCCCCEEEcCcccCcCCCCcEEEEEECchhhhcCC--HHH
Confidence 46899996 44444444432222 34444444433446788899865 4554 399998888874444 468
Q ss_pred HHHHhHHhcCCC
Q 042599 202 ILKNCCVQCNTG 213 (214)
Q Consensus 202 IL~~~~~Al~pg 213 (214)
+|+++.+.|+||
T Consensus 122 ~l~~~~~~Lk~g 133 (251)
T PRK10258 122 ALRELYRVVRPG 133 (251)
T ss_pred HHHHHHHHcCCC
Confidence 899999999996
No 58
>PF05175 MTS: Methyltransferase small domain; InterPro: IPR007848 This domain is found in ribosomal RNA small subunit methyltransferase C and in other methyltransferases.; GO: 0008168 methyltransferase activity; PDB: 1WY7_A 1DUS_A 2OZV_A 2PJD_A 1VQ1_A 1NV9_A 1SG9_C 1NV8_A 3Q87_B 3DMF_A ....
Probab=92.14 E-value=1.3 Score=34.09 Aligned_cols=83 Identities=12% Similarity=0.097 Sum_probs=55.1
Q ss_pred CCCceEEccC--CccHHHHHHhCCCc--------hHHHHhhcc-----CCCceEEecCCCCcccCc--cceeeeehhccC
Q 042599 131 GSVPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMH-----NHTVVEHVSGHMFIEVPN--GQALFMKWILSD 193 (214)
Q Consensus 131 g~~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~-----~~~rv~~~~gDff~~~P~--~d~y~l~~ILHd 193 (214)
....++|+|. |.....++++.|+. +..++.+.. ....++++.+|.+++++. -|+++.-==+|+
T Consensus 31 ~~~~vLDlG~G~G~i~~~la~~~~~~~v~~vDi~~~a~~~a~~n~~~n~~~~v~~~~~d~~~~~~~~~fD~Iv~NPP~~~ 110 (170)
T PF05175_consen 31 KGGRVLDLGCGSGVISLALAKRGPDAKVTAVDINPDALELAKRNAERNGLENVEVVQSDLFEALPDGKFDLIVSNPPFHA 110 (170)
T ss_dssp TTCEEEEETSTTSHHHHHHHHTSTCEEEEEEESBHHHHHHHHHHHHHTTCTTEEEEESSTTTTCCTTCEEEEEE---SBT
T ss_pred cCCeEEEecCChHHHHHHHHHhCCCCEEEEEcCCHHHHHHHHHHHHhcCccccccccccccccccccceeEEEEccchhc
Confidence 4457999995 66666778888983 223322211 122399999999998883 388877544555
Q ss_pred CCh---HHHHHHHHHhHHhcCCC
Q 042599 194 WDD---EECLKILKNCCVQCNTG 213 (214)
Q Consensus 194 w~d---~~~~~IL~~~~~Al~pg 213 (214)
=.+ +-..++++.+.+.|+||
T Consensus 111 ~~~~~~~~~~~~i~~a~~~Lk~~ 133 (170)
T PF05175_consen 111 GGDDGLDLLRDFIEQARRYLKPG 133 (170)
T ss_dssp TSHCHHHHHHHHHHHHHHHEEEE
T ss_pred ccccchhhHHHHHHHHHHhccCC
Confidence 443 46788999999999875
No 59
>TIGR00091 tRNA (guanine-N(7)-)-methyltransferase. In E. coli, this protein flanks the DNA repair protein MutY, also called micA.
Probab=92.02 E-value=0.17 Score=39.94 Aligned_cols=82 Identities=13% Similarity=0.217 Sum_probs=51.7
Q ss_pred CCCceEEccC--CccHHHHHHhCCCc--------hHHHHhhcc-----CCCceEEecCCCCcc----cCcc--ceeeeeh
Q 042599 131 GSVPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMH-----NHTVVEHVSGHMFIE----VPNG--QALFMKW 189 (214)
Q Consensus 131 g~~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~-----~~~rv~~~~gDff~~----~P~~--d~y~l~~ 189 (214)
..+.++|+|. |..+..+++++|+. ...++.+.. ..++|+++.+|+.+. .|.+ |.+++-.
T Consensus 16 ~~~~ilDiGcG~G~~~~~la~~~p~~~v~gvD~~~~~l~~a~~~~~~~~l~ni~~i~~d~~~~~~~~~~~~~~d~v~~~~ 95 (194)
T TIGR00091 16 KAPLHLEIGCGKGRFLIDMAKQNPDKNFLGIEIHTPIVLAANNKANKLGLKNLHVLCGDANELLDKFFPDGSLSKVFLNF 95 (194)
T ss_pred CCceEEEeCCCccHHHHHHHHhCCCCCEEEEEeeHHHHHHHHHHHHHhCCCCEEEEccCHHHHHHhhCCCCceeEEEEEC
Confidence 4467899995 77777889999974 233333321 235899999999752 3332 4444321
Q ss_pred hccCCChHHH-------HHHHHHhHHhcCCC
Q 042599 190 ILSDWDDEEC-------LKILKNCCVQCNTG 213 (214)
Q Consensus 190 ILHdw~d~~~-------~~IL~~~~~Al~pg 213 (214)
-..|+...- ..+|+.+++.|+||
T Consensus 96 -pdpw~k~~h~~~r~~~~~~l~~~~r~Lkpg 125 (194)
T TIGR00091 96 -PDPWPKKRHNKRRITQPHFLKEYANVLKKG 125 (194)
T ss_pred -CCcCCCCCccccccCCHHHHHHHHHHhCCC
Confidence 123443321 46899999999997
No 60
>TIGR03534 RF_mod_PrmC protein-(glutamine-N5) methyltransferase, release factor-specific. Members of this protein family are HemK (PrmC), a protein once thought to be involved in heme biosynthesis but now recognized to be a protein-glutamine methyltransferase that modifies the peptide chain release factors. All members of the seed alignment are encoded next to the release factor 1 gene (prfA) and confirmed by phylogenetic analysis. SIMBAL analysis (manuscript in prep.) shows the motif [LIV]PRx[DE]TE (in Escherichia coli, IPRPDTE) confers specificity for the release factors rather than for ribosomal protein L3.
Probab=91.92 E-value=0.86 Score=36.93 Aligned_cols=81 Identities=14% Similarity=0.080 Sum_probs=52.4
Q ss_pred CceEEccC--CccHHHHHHhCCCc--------hHHHHhhc-----cCCCceEEecCCCCcccCc--cceeee------eh
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSM-----HNHTVVEHVSGHMFIEVPN--GQALFM------KW 189 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~-----~~~~rv~~~~gDff~~~P~--~d~y~l------~~ 189 (214)
..++|+|. |.....++...|.. +..++.+. ...++++++.+|++++.|. -|+++. ..
T Consensus 89 ~~ilDig~G~G~~~~~l~~~~~~~~v~~iD~~~~~~~~a~~~~~~~~~~~~~~~~~d~~~~~~~~~fD~Vi~npPy~~~~ 168 (251)
T TIGR03534 89 LRVLDLGTGSGAIALALAKERPDARVTAVDISPEALAVARKNAARLGLDNVTFLQSDWFEPLPGGKFDLIVSNPPYIPEA 168 (251)
T ss_pred CeEEEEeCcHhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCeEEEEECchhccCcCCceeEEEECCCCCchh
Confidence 46899996 66666777777753 22333221 1234799999999987763 388765 23
Q ss_pred hccCCChHH------------------HHHHHHHhHHhcCCC
Q 042599 190 ILSDWDDEE------------------CLKILKNCCVQCNTG 213 (214)
Q Consensus 190 ILHdw~d~~------------------~~~IL~~~~~Al~pg 213 (214)
.+|.++.+. ...+++++.+.|+||
T Consensus 169 ~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~i~~~~~~L~~g 210 (251)
T TIGR03534 169 DIHLLDPEVRFHEPRLALFGGEDGLDFYRRIIAQAPRLLKPG 210 (251)
T ss_pred hhhhcChhhhhcCCHHHHcCCCcHHHHHHHHHHHHHHhcccC
Confidence 344443332 247899999999987
No 61
>PLN02366 spermidine synthase
Probab=91.76 E-value=0.9 Score=38.74 Aligned_cols=80 Identities=10% Similarity=0.008 Sum_probs=49.3
Q ss_pred CCceEEccC--CccHHHHHHhCCCc---------hHHHHhhcc---------CCCceEEecCCCCc---ccCc--cceee
Q 042599 132 SVPHTKAQS--GMDAFAAAAKDARM---------NNLFNQSMH---------NHTVVEHVSGHMFI---EVPN--GQALF 186 (214)
Q Consensus 132 ~~~~~dvgG--G~~~~~~~~~~P~l---------~~v~~~~~~---------~~~rv~~~~gDff~---~~P~--~d~y~ 186 (214)
...++++|| |..+.+++ ++|.. +.+++.+.. ..+|++++.+|.++ ..|+ =|+++
T Consensus 92 pkrVLiIGgG~G~~~rell-k~~~v~~V~~VEiD~~Vi~~ar~~f~~~~~~~~dpRv~vi~~Da~~~l~~~~~~~yDvIi 170 (308)
T PLN02366 92 PKKVLVVGGGDGGVLREIA-RHSSVEQIDICEIDKMVIDVSKKFFPDLAVGFDDPRVNLHIGDGVEFLKNAPEGTYDAII 170 (308)
T ss_pred CCeEEEEcCCccHHHHHHH-hCCCCCeEEEEECCHHHHHHHHHhhhhhccccCCCceEEEEChHHHHHhhccCCCCCEEE
Confidence 456899998 45555665 45643 234544322 25799999999753 4443 38887
Q ss_pred eehhccCCChH---HHHHHHHHhHHhcCCC
Q 042599 187 MKWILSDWDDE---ECLKILKNCCVQCNTG 213 (214)
Q Consensus 187 l~~ILHdw~d~---~~~~IL~~~~~Al~pg 213 (214)
+-.--+ +... .....++++++.|+||
T Consensus 171 ~D~~dp-~~~~~~L~t~ef~~~~~~~L~pg 199 (308)
T PLN02366 171 VDSSDP-VGPAQELFEKPFFESVARALRPG 199 (308)
T ss_pred EcCCCC-CCchhhhhHHHHHHHHHHhcCCC
Confidence 632111 1112 2567899999999987
No 62
>PRK13255 thiopurine S-methyltransferase; Reviewed
Probab=91.70 E-value=0.9 Score=36.68 Aligned_cols=49 Identities=12% Similarity=0.152 Sum_probs=43.3
Q ss_pred CCceEEecCCCCcccCc--c--ceeeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 165 HTVVEHVSGHMFIEVPN--G--QALFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 165 ~~rv~~~~gDff~~~P~--~--d~y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
..+|++..+|+|+..|. + |+++=+.++|..+.+.-.+.++++.++|+||
T Consensus 96 ~~~v~~~~~D~~~l~~~~~~~fd~v~D~~~~~~l~~~~R~~~~~~l~~lL~pg 148 (218)
T PRK13255 96 AGEITIYCGDFFALTAADLADVDAVYDRAALIALPEEMRERYVQQLAALLPAG 148 (218)
T ss_pred cCceEEEECcccCCCcccCCCeeEEEehHhHhhCCHHHHHHHHHHHHHHcCCC
Confidence 35799999999986442 3 9999999999999999999999999999998
No 63
>COG1414 IclR Transcriptional regulator [Transcription]
Probab=91.61 E-value=0.12 Score=42.60 Aligned_cols=43 Identities=14% Similarity=0.167 Sum_probs=37.0
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhcccc
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYF 70 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l 70 (214)
||+++|++...++|+|..|+..|++++++. .++|.+++-.-.|
T Consensus 25 la~~~glpksT~~RlL~tL~~~G~v~~d~~--------~g~Y~Lg~~~~~l 67 (246)
T COG1414 25 LAERLGLPKSTVHRLLQTLVELGYVEQDPE--------DGRYRLGPRLLEL 67 (246)
T ss_pred HHHHhCcCHHHHHHHHHHHHHCCCEEEcCC--------CCcEeehHHHHHH
Confidence 899999999999999999999999999731 5789998865443
No 64
>PRK11805 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=91.44 E-value=0.65 Score=39.52 Aligned_cols=81 Identities=11% Similarity=0.019 Sum_probs=52.6
Q ss_pred CceEEccC--CccHHHHHHhCCCc--------hHHHHhhcc------CCCceEEecCCCCcccCc--cceeeee------
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMH------NHTVVEHVSGHMFIEVPN--GQALFMK------ 188 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~------~~~rv~~~~gDff~~~P~--~d~y~l~------ 188 (214)
..++|+|+ |..+..++...|.. +..++.+.. ..++|+++.+|+++.+|. -|+++.-
T Consensus 135 ~~VLDlG~GsG~iai~la~~~p~~~V~avDis~~al~~A~~n~~~~~l~~~i~~~~~D~~~~l~~~~fDlIvsNPPyi~~ 214 (307)
T PRK11805 135 TRILDLCTGSGCIAIACAYAFPDAEVDAVDISPDALAVAEINIERHGLEDRVTLIESDLFAALPGRRYDLIVSNPPYVDA 214 (307)
T ss_pred CEEEEEechhhHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCCcEEEEECchhhhCCCCCccEEEECCCCCCc
Confidence 46899997 55555677777753 233333321 135799999999987774 3887752
Q ss_pred -------hhccCCCh----------HHHHHHHHHhHHhcCCC
Q 042599 189 -------WILSDWDD----------EECLKILKNCCVQCNTG 213 (214)
Q Consensus 189 -------~ILHdw~d----------~~~~~IL~~~~~Al~pg 213 (214)
...+..+. +...+|++++.+.|+||
T Consensus 215 ~~~~~l~~~~~~eP~~AL~gg~dGl~~~~~i~~~a~~~L~pg 256 (307)
T PRK11805 215 EDMADLPAEYRHEPELALAAGDDGLDLVRRILAEAPDYLTED 256 (307)
T ss_pred cchhhcCHhhccCccceeeCCCchHHHHHHHHHHHHHhcCCC
Confidence 11232221 34578999999999987
No 65
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=91.21 E-value=0.14 Score=34.97 Aligned_cols=40 Identities=15% Similarity=0.183 Sum_probs=33.5
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhc
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVS 67 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s 67 (214)
||+.+|++...+.|+|+.|+..|++.... . .+.|..++-.
T Consensus 26 ia~~l~i~~~tv~r~l~~L~~~g~l~~~~----~----~~~y~l~~~~ 65 (91)
T smart00346 26 LAERLGLSKSTAHRLLNTLQELGYVEQDG----Q----NGRYRLGPKV 65 (91)
T ss_pred HHHHhCCCHHHHHHHHHHHHHCCCeeecC----C----CCceeecHHH
Confidence 88999999999999999999999998852 1 5678876643
No 66
>TIGR02431 pcaR_pcaU beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family. Member of this family are IclR-type transcriptional regulators with similar DNA binding sites, able to bind at least three different metabolites related to protocatechuate metabolism. Beta-ketoadipate is the inducer for PcaR, p-hydroxybenzoate for PobR, and protocatechuate for PcaU.
Probab=90.73 E-value=0.13 Score=42.14 Aligned_cols=41 Identities=20% Similarity=0.246 Sum_probs=35.9
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhcccc
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYF 70 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l 70 (214)
||+.+|++...+.|+|..|+..|+++++ +++|.+.+....|
T Consensus 30 ia~~lglpksT~~RlL~tL~~~G~l~~~----------~~~Y~lG~~~~~l 70 (248)
T TIGR02431 30 VAEATGLTRAAARRFLLTLVELGYVTSD----------GRLFWLTPRVLRL 70 (248)
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCCEEeC----------CCEEEecHHHHHH
Confidence 8999999999999999999999999875 5789998865444
No 67
>PRK14121 tRNA (guanine-N(7)-)-methyltransferase; Provisional
Probab=90.71 E-value=0.94 Score=39.89 Aligned_cols=80 Identities=13% Similarity=0.172 Sum_probs=53.7
Q ss_pred CceEEccC--CccHHHHHHhCCCc--------hHHHHhhc-----cCCCceEEecCCC---CcccCcc--ceeeeehhcc
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSM-----HNHTVVEHVSGHM---FIEVPNG--QALFMKWILS 192 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~-----~~~~rv~~~~gDf---f~~~P~~--d~y~l~~ILH 192 (214)
+.++|+|. |..+..+++++|+. +..+..+. ...+.|.++.+|. ++.+|.+ |.+++.. --
T Consensus 124 p~vLEIGcGsG~~ll~lA~~~P~~~~iGIEI~~~~i~~a~~ka~~~gL~NV~~i~~DA~~ll~~~~~~s~D~I~lnF-Pd 202 (390)
T PRK14121 124 KILIEIGFGSGRHLLYQAKNNPNKLFIGIEIHTPSIEQVLKQIELLNLKNLLIINYDARLLLELLPSNSVEKIFVHF-PV 202 (390)
T ss_pred CeEEEEcCcccHHHHHHHHhCCCCCEEEEECCHHHHHHHHHHHHHcCCCcEEEEECCHHHhhhhCCCCceeEEEEeC-CC
Confidence 56899995 77788899999974 22333332 1246799999996 3466753 7776532 22
Q ss_pred CCChHHH-----HHHHHHhHHhcCCC
Q 042599 193 DWDDEEC-----LKILKNCCVQCNTG 213 (214)
Q Consensus 193 dw~d~~~-----~~IL~~~~~Al~pg 213 (214)
.|+...- ...|+.+++.|+||
T Consensus 203 PW~KkrHRRlv~~~fL~e~~RvLkpG 228 (390)
T PRK14121 203 PWDKKPHRRVISEDFLNEALRVLKPG 228 (390)
T ss_pred CccccchhhccHHHHHHHHHHHcCCC
Confidence 3654432 46799999999987
No 68
>PRK06202 hypothetical protein; Provisional
Probab=90.37 E-value=1.3 Score=35.72 Aligned_cols=81 Identities=14% Similarity=0.127 Sum_probs=50.1
Q ss_pred CCceEEccC--CccHHHHHH----hCCCc--------hHHHHhhccC--CCceEEecC--CCCcccCc-cceeeeehhcc
Q 042599 132 SVPHTKAQS--GMDAFAAAA----KDARM--------NNLFNQSMHN--HTVVEHVSG--HMFIEVPN-GQALFMKWILS 192 (214)
Q Consensus 132 ~~~~~dvgG--G~~~~~~~~----~~P~l--------~~v~~~~~~~--~~rv~~~~g--Dff~~~P~-~d~y~l~~ILH 192 (214)
...++|+|. |..+..+++ ..|.. +..++.+... ..++++..+ |-+...+. -|+++...+||
T Consensus 61 ~~~iLDlGcG~G~~~~~L~~~~~~~g~~~~v~gvD~s~~~l~~a~~~~~~~~~~~~~~~~~~l~~~~~~fD~V~~~~~lh 140 (232)
T PRK06202 61 PLTLLDIGCGGGDLAIDLARWARRDGLRLEVTAIDPDPRAVAFARANPRRPGVTFRQAVSDELVAEGERFDVVTSNHFLH 140 (232)
T ss_pred CcEEEEeccCCCHHHHHHHHHHHhCCCCcEEEEEcCCHHHHHHHHhccccCCCeEEEEecccccccCCCccEEEECCeee
Confidence 356899996 544444443 23321 3344444332 233444443 33322233 49999999999
Q ss_pred CCChHHHHHHHHHhHHhcCC
Q 042599 193 DWDDEECLKILKNCCVQCNT 212 (214)
Q Consensus 193 dw~d~~~~~IL~~~~~Al~p 212 (214)
..+|++...+|+++++.++.
T Consensus 141 h~~d~~~~~~l~~~~r~~~~ 160 (232)
T PRK06202 141 HLDDAEVVRLLADSAALARR 160 (232)
T ss_pred cCChHHHHHHHHHHHHhcCe
Confidence 99999989999999988763
No 69
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=90.32 E-value=0.19 Score=29.70 Aligned_cols=28 Identities=14% Similarity=0.126 Sum_probs=26.1
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+.+|++...+.|.|+.|...|+++..
T Consensus 14 la~~l~~s~~tv~~~l~~L~~~g~l~~~ 41 (48)
T smart00419 14 IAELLGLTRETVSRTLKRLEKEGLISRE 41 (48)
T ss_pred HHHHHCCCHHHHHHHHHHHHHCCCEEEe
Confidence 7888999999999999999999999875
No 70
>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional
Probab=90.29 E-value=1.3 Score=38.33 Aligned_cols=81 Identities=11% Similarity=0.129 Sum_probs=56.9
Q ss_pred CceEEccC--CccHHHHHHhCCCc--------hHHHHhhcc----CCCceEEecCCCCcccCcc-ceeeeehhccCC---
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMH----NHTVVEHVSGHMFIEVPNG-QALFMKWILSDW--- 194 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~----~~~rv~~~~gDff~~~P~~-d~y~l~~ILHdw--- 194 (214)
..++|+|. |.....+++++|+. +..++.+.. ..-..+++.+|.++..+.. |+++..--+|+.
T Consensus 198 g~VLDlGCG~G~ls~~la~~~p~~~v~~vDis~~Al~~A~~nl~~n~l~~~~~~~D~~~~~~~~fDlIvsNPPFH~g~~~ 277 (342)
T PRK09489 198 GKVLDVGCGAGVLSAVLARHSPKIRLTLSDVSAAALESSRATLAANGLEGEVFASNVFSDIKGRFDMIISNPPFHDGIQT 277 (342)
T ss_pred CeEEEeccCcCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCCCEEEEcccccccCCCccEEEECCCccCCccc
Confidence 35899996 65566778888853 123333221 1123567889998766543 999998888874
Q ss_pred ChHHHHHHHHHhHHhcCCC
Q 042599 195 DDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 195 ~d~~~~~IL~~~~~Al~pg 213 (214)
+.+...++++++.+.|+||
T Consensus 278 ~~~~~~~~i~~a~~~Lkpg 296 (342)
T PRK09489 278 SLDAAQTLIRGAVRHLNSG 296 (342)
T ss_pred cHHHHHHHHHHHHHhcCcC
Confidence 5567889999999999987
No 71
>cd00092 HTH_CRP helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.
Probab=90.00 E-value=0.2 Score=31.94 Aligned_cols=37 Identities=14% Similarity=0.118 Sum_probs=31.9
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecch
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLAS 65 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~ 65 (214)
||+.+|++...+.|+|+.|...|++.... .+.|..+|
T Consensus 31 la~~~g~s~~tv~r~l~~L~~~g~i~~~~---------~~~~~l~~ 67 (67)
T cd00092 31 IADYLGLTRETVSRTLKELEEEGLISRRG---------RGKYRVNP 67 (67)
T ss_pred HHHHHCCCHHHHHHHHHHHHHCCCEEecC---------CCeEEeCC
Confidence 99999999999999999999999999861 26777654
No 72
>TIGR02469 CbiT precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit. This model recognizes the CbiT methylase which is responsible, in part (along with CbiE), for methylating precorrin-6y (or cobalt-precorrin-6y) at both the 5 and 15 positions as well as the concomitant decarbozylation at C-12. In many organisms, this protein is fused to the CbiE subunit. The fused protein, when found in organisms catalyzing the oxidative version of the cobalamin biosynthesis pathway, is called CobL.
Probab=89.93 E-value=2.3 Score=30.06 Aligned_cols=76 Identities=12% Similarity=-0.053 Sum_probs=50.2
Q ss_pred CceEEccC--CccHHHHHHhCCCc--------hHHHHhhc-----cCCCceEEecCCCCcc---cC-ccceeeeehhccC
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSM-----HNHTVVEHVSGHMFIE---VP-NGQALFMKWILSD 193 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~-----~~~~rv~~~~gDff~~---~P-~~d~y~l~~ILHd 193 (214)
..++|+|. |..+..++++.|+. +..++.+. ....+++++.+|.... .+ +-|++++....
T Consensus 21 ~~vldlG~G~G~~~~~l~~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~v~~~~~~-- 98 (124)
T TIGR02469 21 DVLWDIGAGSGSITIEAARLVPNGRVYAIERNPEALRLIERNARRFGVSNIVIVEGDAPEALEDSLPEPDRVFIGGSG-- 98 (124)
T ss_pred CEEEEeCCCCCHHHHHHHHHCCCceEEEEcCCHHHHHHHHHHHHHhCCCceEEEeccccccChhhcCCCCEEEECCcc--
Confidence 47899996 66777788887752 12222221 1235789998886642 22 34888876543
Q ss_pred CChHHHHHHHHHhHHhcCCC
Q 042599 194 WDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 194 w~d~~~~~IL~~~~~Al~pg 213 (214)
....++++++++.|+||
T Consensus 99 ---~~~~~~l~~~~~~Lk~g 115 (124)
T TIGR02469 99 ---GLLQEILEAIWRRLRPG 115 (124)
T ss_pred ---hhHHHHHHHHHHHcCCC
Confidence 34569999999999987
No 73
>PRK10163 DNA-binding transcriptional repressor AllR; Provisional
Probab=89.82 E-value=0.21 Score=41.71 Aligned_cols=42 Identities=12% Similarity=0.038 Sum_probs=35.8
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccc
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRY 69 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~ 69 (214)
||+.+|++...+.|+|..|+..|++.+++. .++|.+++-...
T Consensus 46 Ia~~lglpkStv~RlL~tL~~~G~l~~~~~--------~~~Y~lG~~l~~ 87 (271)
T PRK10163 46 ISLNLDLPLSTTFRLLKVLQAADFVYQDSQ--------LGWWHIGLGVFN 87 (271)
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCCEEEcCC--------CCeEEecHHHHH
Confidence 899999999999999999999999988621 678988875443
No 74
>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional
Probab=89.79 E-value=0.2 Score=41.40 Aligned_cols=43 Identities=12% Similarity=0.135 Sum_probs=36.6
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhcccc
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYF 70 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l 70 (214)
||+.+|++...+.|+|+.|+..|+++++. + .++|.+++....|
T Consensus 34 ia~~lgl~kstv~Rll~tL~~~G~l~~~~----~----~~~Y~lG~~~~~l 76 (257)
T PRK15090 34 LSQRVMMSKSTVYRFLQTMKTLGYVAQEG----E----SEKYSLTLKLFEL 76 (257)
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCCEEEcC----C----CCcEEecHHHHHH
Confidence 89999999999999999999999999862 1 5789998765443
No 75
>PF04672 Methyltransf_19: S-adenosyl methyltransferase; InterPro: IPR006764 This is a family of uncharacterised proteins.; PDB: 3GIW_A 3GO4_A 2QE6_A.
Probab=89.79 E-value=0.71 Score=38.46 Aligned_cols=83 Identities=14% Similarity=0.151 Sum_probs=49.0
Q ss_pred CCCceEEccCCc----cHHHHH-HhCCCc--------hHHHHhhc---cCCCc--eEEecCCCCcc-----cCc--c--c
Q 042599 131 GSVPHTKAQSGM----DAFAAA-AKDARM--------NNLFNQSM---HNHTV--VEHVSGHMFIE-----VPN--G--Q 183 (214)
Q Consensus 131 g~~~~~dvgGG~----~~~~~~-~~~P~l--------~~v~~~~~---~~~~r--v~~~~gDff~~-----~P~--~--d 183 (214)
|-.+|+|+|.|. ...+++ +.+|+- +-|+..+. ...++ ..++.+|+.+| -|. + |
T Consensus 68 GIrQFLDlGsGlPT~~nvHevAq~~~P~aRVVYVD~DPvv~ah~ralL~~~~~g~t~~v~aD~r~p~~iL~~p~~~~~lD 147 (267)
T PF04672_consen 68 GIRQFLDLGSGLPTAGNVHEVAQRVAPDARVVYVDNDPVVLAHARALLADNPRGRTAYVQADLRDPEAILAHPEVRGLLD 147 (267)
T ss_dssp ---EEEEET--S--SS-HHHHHHHH-TT-EEEEEESSHHHHHCCHHHHTT-TTSEEEEEE--TT-HHHHHCSHHHHCC--
T ss_pred CcceEEEcccCCCCCCCHhHHHHhhCCCceEEEECCCchHHHHHHhhhcCCCCccEEEEeCCCCCHHHHhcCHHHHhcCC
Confidence 678899999653 345554 347865 33443322 23334 89999999974 232 2 3
Q ss_pred -----eeeeehhccCCCh-HHHHHHHHHhHHhcCCC
Q 042599 184 -----ALFMKWILSDWDD-EECLKILKNCCVQCNTG 213 (214)
Q Consensus 184 -----~y~l~~ILHdw~d-~~~~~IL~~~~~Al~pg 213 (214)
+++|-.|||--+| ++...|++.++++|+||
T Consensus 148 ~~rPVavll~~vLh~v~D~~dp~~iv~~l~d~lapG 183 (267)
T PF04672_consen 148 FDRPVAVLLVAVLHFVPDDDDPAGIVARLRDALAPG 183 (267)
T ss_dssp TTS--EEEECT-GGGS-CGCTHHHHHHHHHCCS-TT
T ss_pred CCCCeeeeeeeeeccCCCccCHHHHHHHHHHhCCCC
Confidence 8899999999988 89999999999999998
No 76
>TIGR03533 L3_gln_methyl protein-(glutamine-N5) methyltransferase, ribosomal protein L3-specific. Members of this protein family methylate ribosomal protein L3 on a glutamine side chain. This family is related to HemK, a protein-glutamine methyltranferase for peptide chain release factors.
Probab=89.47 E-value=1.4 Score=37.02 Aligned_cols=82 Identities=12% Similarity=0.052 Sum_probs=51.8
Q ss_pred CCceEEccC--CccHHHHHHhCCCc--------hHHHHhhcc------CCCceEEecCCCCcccCc--cceeeee-----
Q 042599 132 SVPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMH------NHTVVEHVSGHMFIEVPN--GQALFMK----- 188 (214)
Q Consensus 132 ~~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~------~~~rv~~~~gDff~~~P~--~d~y~l~----- 188 (214)
...++|+|. |..+..++...|+. +..++.+.. ..++|+++.+|+++++|. -|+++.-
T Consensus 122 ~~~vLDlG~GsG~i~~~la~~~~~~~v~avDis~~al~~A~~n~~~~~~~~~i~~~~~D~~~~~~~~~fD~Iv~NPPy~~ 201 (284)
T TIGR03533 122 VKRILDLCTGSGCIAIACAYAFPEAEVDAVDISPDALAVAEINIERHGLEDRVTLIQSDLFAALPGRKYDLIVSNPPYVD 201 (284)
T ss_pred CCEEEEEeCchhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhhccCCCCccEEEECCCCCC
Confidence 356899997 44555677777743 233333221 135899999999987774 3887752
Q ss_pred --------hhccCCCh----------HHHHHHHHHhHHhcCCC
Q 042599 189 --------WILSDWDD----------EECLKILKNCCVQCNTG 213 (214)
Q Consensus 189 --------~ILHdw~d----------~~~~~IL~~~~~Al~pg 213 (214)
..++..+. +...+|++++.+.|+||
T Consensus 202 ~~~~~~l~~~~~~ep~~al~gg~dGl~~~~~il~~a~~~L~~g 244 (284)
T TIGR03533 202 AEDMADLPAEYHHEPELALASGEDGLDLVRRILAEAADHLNEN 244 (284)
T ss_pred ccchhhCCHhhhcCHHHHhcCCCcHHHHHHHHHHHHHHhcCCC
Confidence 11222221 34578999999999986
No 77
>PRK05785 hypothetical protein; Provisional
Probab=89.34 E-value=1.1 Score=36.28 Aligned_cols=77 Identities=9% Similarity=0.094 Sum_probs=51.6
Q ss_pred CCceEEccC--CccHHHHHHhCC-Cc------hHHHHhhccCCCceEEecCCCCc-ccCcc--ceeeeehhccCCChHHH
Q 042599 132 SVPHTKAQS--GMDAFAAAAKDA-RM------NNLFNQSMHNHTVVEHVSGHMFI-EVPNG--QALFMKWILSDWDDEEC 199 (214)
Q Consensus 132 ~~~~~dvgG--G~~~~~~~~~~P-~l------~~v~~~~~~~~~rv~~~~gDff~-~~P~~--d~y~l~~ILHdw~d~~~ 199 (214)
...++|+|. |..+..+.+... ++ +..++.+.. +.+++.+|+.+ |+|.+ |+++....||+++|.
T Consensus 52 ~~~VLDlGcGtG~~~~~l~~~~~~~v~gvD~S~~Ml~~a~~---~~~~~~~d~~~lp~~d~sfD~v~~~~~l~~~~d~-- 126 (226)
T PRK05785 52 PKKVLDVAAGKGELSYHFKKVFKYYVVALDYAENMLKMNLV---ADDKVVGSFEALPFRDKSFDVVMSSFALHASDNI-- 126 (226)
T ss_pred CCeEEEEcCCCCHHHHHHHHhcCCEEEEECCCHHHHHHHHh---ccceEEechhhCCCCCCCEEEEEecChhhccCCH--
Confidence 357899996 666666666542 11 233444333 23466788774 55543 999999999998875
Q ss_pred HHHHHHhHHhcCCC
Q 042599 200 LKILKNCCVQCNTG 213 (214)
Q Consensus 200 ~~IL~~~~~Al~pg 213 (214)
.+.|+.+++.++|.
T Consensus 127 ~~~l~e~~RvLkp~ 140 (226)
T PRK05785 127 EKVIAEFTRVSRKQ 140 (226)
T ss_pred HHHHHHHHHHhcCc
Confidence 45789999998873
No 78
>PRK11569 transcriptional repressor IclR; Provisional
Probab=89.12 E-value=0.2 Score=41.80 Aligned_cols=43 Identities=9% Similarity=0.082 Sum_probs=36.3
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhcccc
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYF 70 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l 70 (214)
||+.+|++...+.|+|..|+..|+++++. + .++|++.+....|
T Consensus 49 ia~~lglpksTv~RlL~tL~~~G~l~~~~----~----~~~Y~lG~~l~~L 91 (274)
T PRK11569 49 LAQQAGLPNSTTHRLLTTMQQQGFVRQVG----E----LGHWAIGAHAFIV 91 (274)
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCCEEEcC----C----CCeEecCHHHHHH
Confidence 89999999999999999999999998862 1 6889988765433
No 79
>PRK04457 spermidine synthase; Provisional
Probab=89.09 E-value=1.2 Score=37.07 Aligned_cols=80 Identities=8% Similarity=-0.045 Sum_probs=52.8
Q ss_pred CceEEccC--CccHHHHHHhCCCc--------hHHHHhhcc------CCCceEEecCCCCc---ccCc-cceeeeehhcc
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMH------NHTVVEHVSGHMFI---EVPN-GQALFMKWILS 192 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~------~~~rv~~~~gDff~---~~P~-~d~y~l~~ILH 192 (214)
..++|+|+ |..+..+.+..|+. +.+++.+.. ..++++++.+|..+ ..|+ -|++++.. .+
T Consensus 68 ~~vL~IG~G~G~l~~~l~~~~p~~~v~~VEidp~vi~~A~~~f~~~~~~~rv~v~~~Da~~~l~~~~~~yD~I~~D~-~~ 146 (262)
T PRK04457 68 QHILQIGLGGGSLAKFIYTYLPDTRQTAVEINPQVIAVARNHFELPENGERFEVIEADGAEYIAVHRHSTDVILVDG-FD 146 (262)
T ss_pred CEEEEECCCHhHHHHHHHHhCCCCeEEEEECCHHHHHHHHHHcCCCCCCCceEEEECCHHHHHHhCCCCCCEEEEeC-CC
Confidence 45899997 55555677778864 455554432 24789999999864 3443 39998752 22
Q ss_pred --CCChHH-HHHHHHHhHHhcCCC
Q 042599 193 --DWDDEE-CLKILKNCCVQCNTG 213 (214)
Q Consensus 193 --dw~d~~-~~~IL~~~~~Al~pg 213 (214)
..+... ...++++|.+.|+||
T Consensus 147 ~~~~~~~l~t~efl~~~~~~L~pg 170 (262)
T PRK04457 147 GEGIIDALCTQPFFDDCRNALSSD 170 (262)
T ss_pred CCCCccccCcHHHHHHHHHhcCCC
Confidence 122222 379999999999987
No 80
>PF12147 Methyltransf_20: Putative methyltransferase; InterPro: IPR022744 This C-terminal region is found in bacteria and eukaryotes and is approximately 110 amino acids in length. It is found in association with PF00561 from PFAM. Many members are annotated as being lysophospholipases, and others as alpha-beta hydrolase fold-containing proteins. This domain belongs to the S-adenosyl-L-methionine-dependent methyltransferases superfamily.
Probab=89.08 E-value=2.2 Score=36.09 Aligned_cols=80 Identities=11% Similarity=0.103 Sum_probs=59.0
Q ss_pred ceEEccC--CccHHHHHHhCCCch----------HHHHhhcc------CCCceEEecCCCCcc------cCccceeeeeh
Q 042599 134 PHTKAQS--GMDAFAAAAKDARMN----------NLFNQSMH------NHTVVEHVSGHMFIE------VPNGQALFMKW 189 (214)
Q Consensus 134 ~~~dvgG--G~~~~~~~~~~P~l~----------~v~~~~~~------~~~rv~~~~gDff~~------~P~~d~y~l~~ 189 (214)
.++||-+ |...++.+.++|+.+ ..++...+ ..+.++|..+|-|+. .|+-++.+.+-
T Consensus 138 rIlDIAaG~GRYvlDal~~~~~~~~~i~LrDys~~Nv~~g~~li~~~gL~~i~~f~~~dAfd~~~l~~l~p~P~l~iVsG 217 (311)
T PF12147_consen 138 RILDIAAGHGRYVLDALEKHPERPDSILLRDYSPINVEKGRALIAERGLEDIARFEQGDAFDRDSLAALDPAPTLAIVSG 217 (311)
T ss_pred EEEEeccCCcHHHHHHHHhCCCCCceEEEEeCCHHHHHHHHHHHHHcCCccceEEEecCCCCHhHhhccCCCCCEEEEec
Confidence 4789864 778889999999732 22332221 134469999999973 33458999999
Q ss_pred hccCCChHHHHH-HHHHhHHhcCCC
Q 042599 190 ILSDWDDEECLK-ILKNCCVQCNTG 213 (214)
Q Consensus 190 ILHdw~d~~~~~-IL~~~~~Al~pg 213 (214)
+.--++|.+.++ -|+.++.++.||
T Consensus 218 L~ElF~Dn~lv~~sl~gl~~al~pg 242 (311)
T PF12147_consen 218 LYELFPDNDLVRRSLAGLARALEPG 242 (311)
T ss_pred chhhCCcHHHHHHHHHHHHHHhCCC
Confidence 999999988665 699999999987
No 81
>PLN02585 magnesium protoporphyrin IX methyltransferase
Probab=89.08 E-value=1 Score=38.49 Aligned_cols=76 Identities=9% Similarity=0.074 Sum_probs=50.2
Q ss_pred CceEEccC--CccHHHHHHhCCCc------hHHHHhhccC----------CCceEEecCCCCcccCc-cceeeeehhccC
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM------NNLFNQSMHN----------HTVVEHVSGHMFIEVPN-GQALFMKWILSD 193 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l------~~v~~~~~~~----------~~rv~~~~gDff~~~P~-~d~y~l~~ILHd 193 (214)
..++|+|+ |..+..+.+..-++ +..++.+... ..++++..+|+.+ ++. -|++++..+||.
T Consensus 146 ~~VLDlGcGtG~~a~~la~~g~~V~gvD~S~~ml~~A~~~~~~~~~~~~~~~~~~f~~~Dl~~-l~~~fD~Vv~~~vL~H 224 (315)
T PLN02585 146 VTVCDAGCGTGSLAIPLALEGAIVSASDISAAMVAEAERRAKEALAALPPEVLPKFEANDLES-LSGKYDTVTCLDVLIH 224 (315)
T ss_pred CEEEEecCCCCHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHhcccccccccceEEEEcchhh-cCCCcCEEEEcCEEEe
Confidence 46999997 55555666543222 2233322211 2367888889754 333 499999999999
Q ss_pred CChHHHHHHHHHhHHh
Q 042599 194 WDDEECLKILKNCCVQ 209 (214)
Q Consensus 194 w~d~~~~~IL~~~~~A 209 (214)
++++....+++++...
T Consensus 225 ~p~~~~~~ll~~l~~l 240 (315)
T PLN02585 225 YPQDKADGMIAHLASL 240 (315)
T ss_pred cCHHHHHHHHHHHHhh
Confidence 9999888899888754
No 82
>TIGR00138 gidB 16S rRNA methyltransferase GidB. GidB (glucose-inhibited division protein B) appears to be present and in a single copy in nearly all complete eubacterial genomes. It is missing only from some obligate intracellular species of various lineages (Chlamydiae, Ehrlichia, Wolbachia, Anaplasma, Buchnera, etc.). GidB shows a methytransferase fold in its the crystal structure, and acts as a 7-methylguanosine (m(7)G) methyltransferase, apparently specific to 16S rRNA.
Probab=88.77 E-value=1.3 Score=34.55 Aligned_cols=76 Identities=13% Similarity=0.047 Sum_probs=47.6
Q ss_pred CCceEEccC--CccHHHHHHhCCCc--------hHHH---Hhhc--cCCCceEEecCCCCcccC--ccceeeeehhccCC
Q 042599 132 SVPHTKAQS--GMDAFAAAAKDARM--------NNLF---NQSM--HNHTVVEHVSGHMFIEVP--NGQALFMKWILSDW 194 (214)
Q Consensus 132 ~~~~~dvgG--G~~~~~~~~~~P~l--------~~v~---~~~~--~~~~rv~~~~gDff~~~P--~~d~y~l~~ILHdw 194 (214)
...++|+|. |..+..++...|.. +..+ +... ...++|+++.+|..+-.+ +-|+++... +|+.
T Consensus 43 ~~~vLDiGcGtG~~s~~la~~~~~~~V~~iD~s~~~~~~a~~~~~~~~~~~i~~i~~d~~~~~~~~~fD~I~s~~-~~~~ 121 (181)
T TIGR00138 43 GKKVIDIGSGAGFPGIPLAIARPELKLTLLESNHKKVAFLREVKAELGLNNVEIVNGRAEDFQHEEQFDVITSRA-LASL 121 (181)
T ss_pred CCeEEEecCCCCccHHHHHHHCCCCeEEEEeCcHHHHHHHHHHHHHhCCCCeEEEecchhhccccCCccEEEehh-hhCH
Confidence 357899996 66566666666642 1112 1111 123469999999876322 249887765 6654
Q ss_pred ChHHHHHHHHHhHHhcCCC
Q 042599 195 DDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 195 ~d~~~~~IL~~~~~Al~pg 213 (214)
+ .+++.+.+.|+||
T Consensus 122 ~-----~~~~~~~~~Lkpg 135 (181)
T TIGR00138 122 N-----VLLELTLNLLKVG 135 (181)
T ss_pred H-----HHHHHHHHhcCCC
Confidence 3 4778888888887
No 83
>PRK09834 DNA-binding transcriptional activator MhpR; Provisional
Probab=88.38 E-value=0.26 Score=40.85 Aligned_cols=44 Identities=14% Similarity=0.157 Sum_probs=37.3
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccC
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFF 71 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~ 71 (214)
||+.+|++...+.|+|+.|+..|++++++. ++.|++++....|.
T Consensus 32 ia~~lgl~kstv~RlL~tL~~~g~v~~~~~--------~~~Y~Lg~~~~~l~ 75 (263)
T PRK09834 32 LAELTGLHRTTVRRLLETLQEEGYVRRSAS--------DDSFRLTLKVRQLS 75 (263)
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCCEEEecC--------CCcEEEcHHHHHHH
Confidence 889999999999999999999999998631 57899987665443
No 84
>PRK13256 thiopurine S-methyltransferase; Reviewed
Probab=87.78 E-value=4.8 Score=32.75 Aligned_cols=49 Identities=8% Similarity=-0.012 Sum_probs=43.2
Q ss_pred CCceEEecCCCCcccC----cc--ceeeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 165 HTVVEHVSGHMFIEVP----NG--QALFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 165 ~~rv~~~~gDff~~~P----~~--d~y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
..+|+++.+|||+--| .+ |+++=+.+||-.+++.-.+..+++.+.|+||
T Consensus 102 ~~~i~~~~gD~f~l~~~~~~~~~fD~VyDra~~~Alpp~~R~~Y~~~l~~lL~pg 156 (226)
T PRK13256 102 GDDIEIYVADIFNLPKIANNLPVFDIWYDRGAYIALPNDLRTNYAKMMLEVCSNN 156 (226)
T ss_pred cCceEEEEccCcCCCccccccCCcCeeeeehhHhcCCHHHHHHHHHHHHHHhCCC
Confidence 4579999999998432 13 9999999999999999999999999999997
No 85
>PRK00121 trmB tRNA (guanine-N(7)-)-methyltransferase; Reviewed
Probab=87.68 E-value=0.95 Score=35.93 Aligned_cols=81 Identities=12% Similarity=0.183 Sum_probs=51.3
Q ss_pred CCceEEccC--CccHHHHHHhCCCc--------hHHHHhhcc-----CCCceEEecCCCCc--c--cCcc--ceeeeehh
Q 042599 132 SVPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMH-----NHTVVEHVSGHMFI--E--VPNG--QALFMKWI 190 (214)
Q Consensus 132 ~~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~-----~~~rv~~~~gDff~--~--~P~~--d~y~l~~I 190 (214)
...++|+|. |..+..+++..|.. +..++.+.. ..++++++.+|+.+ + ++.+ |++++...
T Consensus 41 ~~~VLDiGcGtG~~~~~la~~~p~~~v~gVD~s~~~i~~a~~~~~~~~~~~v~~~~~d~~~~l~~~~~~~~~D~V~~~~~ 120 (202)
T PRK00121 41 APIHLEIGFGKGEFLVEMAKANPDINFIGIEVHEPGVGKALKKIEEEGLTNLRLLCGDAVEVLLDMFPDGSLDRIYLNFP 120 (202)
T ss_pred CCeEEEEccCCCHHHHHHHHHCCCccEEEEEechHHHHHHHHHHHHcCCCCEEEEecCHHHHHHHHcCccccceEEEECC
Confidence 356899996 66677777777753 223333221 23679999999843 2 4433 77776433
Q ss_pred ccCCCh-------HHHHHHHHHhHHhcCCC
Q 042599 191 LSDWDD-------EECLKILKNCCVQCNTG 213 (214)
Q Consensus 191 LHdw~d-------~~~~~IL~~~~~Al~pg 213 (214)
. .|.. .....+|+++.+.|+||
T Consensus 121 ~-p~~~~~~~~~~~~~~~~l~~i~~~Lkpg 149 (202)
T PRK00121 121 D-PWPKKRHHKRRLVQPEFLALYARKLKPG 149 (202)
T ss_pred C-CCCCccccccccCCHHHHHHHHHHcCCC
Confidence 2 2321 12578999999999997
No 86
>PF03291 Pox_MCEL: mRNA capping enzyme; InterPro: IPR004971 This is a family of viral mRNA capping enzymes. The enzyme catalyses the first two reactions in the mRNA cap formation pathway. It is a heterodimer consisting of a large and small subunit. This entry is the large subunit. ; GO: 0006370 mRNA capping; PDB: 3EPP_A 3BGV_C 2VDW_C 1RI5_A 1RI3_A 1RI1_A 1Z3C_A 1RI2_A 2HV9_A 1RI4_A.
Probab=87.07 E-value=2.4 Score=36.49 Aligned_cols=104 Identities=14% Similarity=0.206 Sum_probs=64.2
Q ss_pred hhHhhHHhhhhhccHHHHHh---c--CCCceEEcc-C-CccHHHHHHhCCCc-------hHHHHhhccC-----------
Q 042599 110 ALLEGFINTLNRYYLKNALL---E--GSVPHTKAQ-S-GMDAFAAAAKDARM-------NNLFNQSMHN----------- 164 (214)
Q Consensus 110 ~~~~~f~~~m~~~~~~~~~~---~--g~~~~~dvg-G-G~~~~~~~~~~P~l-------~~v~~~~~~~----------- 164 (214)
..++.||+|+..--+...+. . ....++|+| | |..+.-+....+.. ...++++...
T Consensus 36 ~~lR~fNNwvKs~LI~~~~~~~~~~~~~~~VLDl~CGkGGDL~Kw~~~~i~~~vg~Dis~~si~ea~~Ry~~~~~~~~~~ 115 (331)
T PF03291_consen 36 FHLRNFNNWVKSVLIQKYAKKVKQNRPGLTVLDLCCGKGGDLQKWQKAKIKHYVGIDISEESIEEARERYKQLKKRNNSK 115 (331)
T ss_dssp HHHHHHHHHHHHHHHHHHCHCCCCTTTT-EEEEET-TTTTTHHHHHHTT-SEEEEEES-HHHHHHHHHHHHHHHTSTT-H
T ss_pred HHHHHHhHHHHHHHHHHHHHhhhccCCCCeEEEecCCCchhHHHHHhcCCCEEEEEeCCHHHHHHHHHHHHHhccccccc
Confidence 35788888876522222222 1 335689999 5 77777666665532 2233333210
Q ss_pred ----CCceEEecCCCCcc-----cC-c--c-ceeeeehhccC-C-ChHHHHHHHHHhHHhcCCC
Q 042599 165 ----HTVVEHVSGHMFIE-----VP-N--G-QALFMKWILSD-W-DDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 165 ----~~rv~~~~gDff~~-----~P-~--~-d~y~l~~ILHd-w-~d~~~~~IL~~~~~Al~pg 213 (214)
.-..+++.+|-|.. ++ . . |++-+-.-||- | +.+.++.+|+||...|+||
T Consensus 116 ~~~~~f~a~f~~~D~f~~~l~~~~~~~~~~FDvVScQFalHY~Fese~~ar~~l~Nvs~~Lk~G 179 (331)
T PF03291_consen 116 QYRFDFIAEFIAADCFSESLREKLPPRSRKFDVVSCQFALHYAFESEEKARQFLKNVSSLLKPG 179 (331)
T ss_dssp TSEECCEEEEEESTTCCSHHHCTSSSTTS-EEEEEEES-GGGGGSSHHHHHHHHHHHHHTEEEE
T ss_pred cccccchhheeccccccchhhhhccccCCCcceeehHHHHHHhcCCHHHHHHHHHHHHHhcCCC
Confidence 12467889998841 23 2 2 99999999997 4 5666777999999999997
No 87
>COG4106 Tam Trans-aconitate methyltransferase [General function prediction only]
Probab=87.06 E-value=1.3 Score=35.89 Aligned_cols=79 Identities=13% Similarity=0.064 Sum_probs=63.8
Q ss_pred CceEEccC--CccHHHHHHhCCCc--------hHHHHhhccCCCceEEecCCCCcccC--ccceeeeehhccCCChHHHH
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMHNHTVVEHVSGHMFIEVP--NGQALFMKWILSDWDDEECL 200 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~~~~rv~~~~gDff~~~P--~~d~y~l~~ILHdw~d~~~~ 200 (214)
..++|+|. |...--+.+++|+- ++.+..+....+.++|..+|.-+=.| +.|++|-..+||=-+|. .
T Consensus 32 ~~v~DLGCGpGnsTelL~~RwP~A~i~GiDsS~~Mla~Aa~rlp~~~f~~aDl~~w~p~~~~dllfaNAvlqWlpdH--~ 109 (257)
T COG4106 32 RRVVDLGCGPGNSTELLARRWPDAVITGIDSSPAMLAKAAQRLPDATFEEADLRTWKPEQPTDLLFANAVLQWLPDH--P 109 (257)
T ss_pred ceeeecCCCCCHHHHHHHHhCCCCeEeeccCCHHHHHHHHHhCCCCceecccHhhcCCCCccchhhhhhhhhhcccc--H
Confidence 35799995 77777888999964 56777777778899999999987666 46999999999866665 4
Q ss_pred HHHHHhHHhcCCC
Q 042599 201 KILKNCCVQCNTG 213 (214)
Q Consensus 201 ~IL~~~~~Al~pg 213 (214)
++|.++...|.||
T Consensus 110 ~ll~rL~~~L~Pg 122 (257)
T COG4106 110 ELLPRLVSQLAPG 122 (257)
T ss_pred HHHHHHHHhhCCC
Confidence 7889999999887
No 88
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=85.88 E-value=1.7 Score=36.10 Aligned_cols=72 Identities=8% Similarity=0.004 Sum_probs=45.0
Q ss_pred CceEEccC--CccHHHHHHhCCCc-----------hHHHHhhccCCCceEEecCCCCc-ccCcc--ceeeeehhccCCCh
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM-----------NNLFNQSMHNHTVVEHVSGHMFI-EVPNG--QALFMKWILSDWDD 196 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l-----------~~v~~~~~~~~~rv~~~~gDff~-~~P~~--d~y~l~~ILHdw~d 196 (214)
..++|+|. |..+..+.+..|+. +..+..+....+.++++.+|..+ |++.+ |+++-...
T Consensus 87 ~~vLDiGcG~G~~~~~l~~~~~~~~~~~v~giD~s~~~l~~A~~~~~~~~~~~~d~~~lp~~~~sfD~I~~~~~------ 160 (272)
T PRK11088 87 TALLDIGCGEGYYTHALADALPEITTMQLFGLDISKVAIKYAAKRYPQVTFCVASSHRLPFADQSLDAIIRIYA------ 160 (272)
T ss_pred CeEEEECCcCCHHHHHHHHhcccccCCeEEEECCCHHHHHHHHHhCCCCeEEEeecccCCCcCCceeEEEEecC------
Confidence 45899996 55555666665532 23444444445678999999886 55543 88764321
Q ss_pred HHHHHHHHHhHHhcCCC
Q 042599 197 EECLKILKNCCVQCNTG 213 (214)
Q Consensus 197 ~~~~~IL~~~~~Al~pg 213 (214)
...++.+++.|+||
T Consensus 161 ---~~~~~e~~rvLkpg 174 (272)
T PRK11088 161 ---PCKAEELARVVKPG 174 (272)
T ss_pred ---CCCHHHHHhhccCC
Confidence 12356777788876
No 89
>PF13463 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL_A 2YR2_B 3GFM_A 3GFJ_A 3GF2_A 3GEZ_A 2GXG_A 3GFI_A 2EB7_A.
Probab=85.76 E-value=0.57 Score=29.92 Aligned_cols=44 Identities=14% Similarity=0.227 Sum_probs=30.7
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchh
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASV 66 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~ 66 (214)
||+.++++...+.|+++-|...|++++.... .| .....|++|+.
T Consensus 24 l~~~~~~~~~~vs~~i~~L~~~glv~~~~~~--~d-~R~~~~~LT~~ 67 (68)
T PF13463_consen 24 LAERLGISKSTVSRIIKKLEEKGLVEKERDP--HD-KRSKRYRLTPA 67 (68)
T ss_dssp HHHHTT--HHHHHHHHHHHHHTTSEEEEEES--SC-TTSEEEEE-HH
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCCEEecCCC--Cc-CCeeEEEeCCC
Confidence 8889999999999999999999999776321 11 01246888875
No 90
>PRK00811 spermidine synthase; Provisional
Probab=85.75 E-value=3.6 Score=34.55 Aligned_cols=82 Identities=11% Similarity=0.017 Sum_probs=49.3
Q ss_pred CCceEEccC--CccHHHHHHhCCC-------c-hHHHHhhcc----------CCCceEEecCCCCccc--Ccc--ceeee
Q 042599 132 SVPHTKAQS--GMDAFAAAAKDAR-------M-NNLFNQSMH----------NHTVVEHVSGHMFIEV--PNG--QALFM 187 (214)
Q Consensus 132 ~~~~~dvgG--G~~~~~~~~~~P~-------l-~~v~~~~~~----------~~~rv~~~~gDff~~~--P~~--d~y~l 187 (214)
...++++|| |..+.++++..+. + +.+++.+.. ..+|++++.+|..+-+ +++ |++++
T Consensus 77 p~~VL~iG~G~G~~~~~~l~~~~~~~V~~VEid~~vv~~a~~~~~~~~~~~~~d~rv~v~~~Da~~~l~~~~~~yDvIi~ 156 (283)
T PRK00811 77 PKRVLIIGGGDGGTLREVLKHPSVEKITLVEIDERVVEVCRKYLPEIAGGAYDDPRVELVIGDGIKFVAETENSFDVIIV 156 (283)
T ss_pred CCEEEEEecCchHHHHHHHcCCCCCEEEEEeCCHHHHHHHHHHhHHhccccccCCceEEEECchHHHHhhCCCcccEEEE
Confidence 345889997 4555566654221 1 234433321 2579999999987533 232 99887
Q ss_pred ehhccCCChH--HHHHHHHHhHHhcCCC
Q 042599 188 KWILSDWDDE--ECLKILKNCCVQCNTG 213 (214)
Q Consensus 188 ~~ILHdw~d~--~~~~IL~~~~~Al~pg 213 (214)
.-.-+.-+.+ .....++.|++.|+||
T Consensus 157 D~~dp~~~~~~l~t~ef~~~~~~~L~~g 184 (283)
T PRK00811 157 DSTDPVGPAEGLFTKEFYENCKRALKED 184 (283)
T ss_pred CCCCCCCchhhhhHHHHHHHHHHhcCCC
Confidence 5332221222 2467889999999987
No 91
>TIGR00537 hemK_rel_arch HemK-related putative methylase. The gene hemK from E. coli was found to contribute to heme biosynthesis and originally suggested to be protoporphyrinogen oxidase (Medline 95189105). Functional analysis of the nearest homolog in Saccharomyces cerevisiae, YNL063w, finds it is not protoporphyrinogen oxidase and sequence analysis suggests that HemK homologs have S-adenosyl-methionine-dependent methyltransferase activity (Medline 99237242). Homologs are found, usually in a single copy, in nearly all completed genomes, but varying somewhat in apparent domain architecture. This model represents an archaeal and eukaryotic protein family that lacks an N-terminal domain found in HemK and its eubacterial homologs. It is found in a single copy in the first six completed archaeal and eukaryotic genomes.
Probab=85.63 E-value=3.5 Score=31.77 Aligned_cols=81 Identities=12% Similarity=0.067 Sum_probs=52.5
Q ss_pred CceEEccC--CccHHHHHHhCCCc------hHHHHhhcc----CCCceEEecCCCCcccCc-cceeeeehhccCCChH--
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM------NNLFNQSMH----NHTVVEHVSGHMFIEVPN-GQALFMKWILSDWDDE-- 197 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l------~~v~~~~~~----~~~rv~~~~gDff~~~P~-~d~y~l~~ILHdw~d~-- 197 (214)
..++|+|. |..+..+....+.+ +..++.+.. ..-+++++.+|+++..+. -|+++..-.+|..+++
T Consensus 21 ~~vLdlG~G~G~~~~~l~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~fD~Vi~n~p~~~~~~~~~ 100 (179)
T TIGR00537 21 DDVLEIGAGTGLVAIRLKGKGKCILTTDINPFAVKELRENAKLNNVGLDVVMTDLFKGVRGKFDVILFNPPYLPLEDDLR 100 (179)
T ss_pred CeEEEeCCChhHHHHHHHhcCCEEEEEECCHHHHHHHHHHHHHcCCceEEEEcccccccCCcccEEEECCCCCCCcchhc
Confidence 45899996 55555666666532 222222211 223688999999875443 5999888777655442
Q ss_pred -----------------HHHHHHHHhHHhcCCC
Q 042599 198 -----------------ECLKILKNCCVQCNTG 213 (214)
Q Consensus 198 -----------------~~~~IL~~~~~Al~pg 213 (214)
...++|+++.+.|+||
T Consensus 101 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~Lk~g 133 (179)
T TIGR00537 101 RGDWLDVAIDGGKDGRKVIDRFLDELPEILKEG 133 (179)
T ss_pred ccchhhhhhhcCCchHHHHHHHHHhHHHhhCCC
Confidence 1467899999999986
No 92
>PF13489 Methyltransf_23: Methyltransferase domain; PDB: 3JWJ_A 3JWH_B 2AOV_B 2AOT_A 1JQD_B 2AOX_A 1JQE_A 2AOU_B 2AOW_A 3DLI_C ....
Probab=85.52 E-value=1.4 Score=32.74 Aligned_cols=30 Identities=17% Similarity=0.107 Sum_probs=27.4
Q ss_pred cceeeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 182 GQALFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 182 ~d~y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
-|+++...+||..+| ...+|+++.+.|+||
T Consensus 79 fD~i~~~~~l~~~~d--~~~~l~~l~~~Lkpg 108 (161)
T PF13489_consen 79 FDLIICNDVLEHLPD--PEEFLKELSRLLKPG 108 (161)
T ss_dssp EEEEEEESSGGGSSH--HHHHHHHHHHCEEEE
T ss_pred hhhHhhHHHHhhccc--HHHHHHHHHHhcCCC
Confidence 499999999999995 789999999999985
No 93
>PRK09328 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=85.41 E-value=2.2 Score=35.11 Aligned_cols=81 Identities=14% Similarity=0.093 Sum_probs=50.4
Q ss_pred CceEEccC--CccHHHHHHhCCCc--------hHHHHhhc-----cCCCceEEecCCCCcccCc--cceeee------eh
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSM-----HNHTVVEHVSGHMFIEVPN--GQALFM------KW 189 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~-----~~~~rv~~~~gDff~~~P~--~d~y~l------~~ 189 (214)
..++|+|. |.....++...|.. +..++.+. ....+++++.+|++++.+. -|+++. ..
T Consensus 110 ~~vLDiG~GsG~~~~~la~~~~~~~v~~iDis~~~l~~a~~n~~~~~~~~i~~~~~d~~~~~~~~~fD~Iv~npPy~~~~ 189 (275)
T PRK09328 110 LRVLDLGTGSGAIALALAKERPDAEVTAVDISPEALAVARRNAKHGLGARVEFLQGDWFEPLPGGRFDLIVSNPPYIPEA 189 (275)
T ss_pred CEEEEEcCcHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHhCCCCcEEEEEccccCcCCCCceeEEEECCCcCCcc
Confidence 46899995 55566777776643 22222222 1245899999999987763 387764 12
Q ss_pred hccCCCh------------------HHHHHHHHHhHHhcCCC
Q 042599 190 ILSDWDD------------------EECLKILKNCCVQCNTG 213 (214)
Q Consensus 190 ILHdw~d------------------~~~~~IL~~~~~Al~pg 213 (214)
.++..++ +.-.+|++++.+.|+||
T Consensus 190 ~~~~~~~~v~~~ep~~al~~g~~g~~~~~~~~~~~~~~Lk~g 231 (275)
T PRK09328 190 DIHLLQPEVRDHEPHLALFGGEDGLDFYRRIIEQAPRYLKPG 231 (275)
T ss_pred hhhhCCchhhhcCCchhhcCCCCHHHHHHHHHHHHHHhcccC
Confidence 2221211 33478899999999886
No 94
>PRK00107 gidB 16S rRNA methyltransferase GidB; Reviewed
Probab=85.09 E-value=6.7 Score=30.83 Aligned_cols=75 Identities=11% Similarity=0.019 Sum_probs=48.0
Q ss_pred CceEEccC--CccHHHHHHhCCCc--------hHHHHhhc-----cCCCceEEecCCCCcccC--ccceeeeehhccCCC
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSM-----HNHTVVEHVSGHMFIEVP--NGQALFMKWILSDWD 195 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~-----~~~~rv~~~~gDff~~~P--~~d~y~l~~ILHdw~ 195 (214)
..++|+|. |..+..++.+.|.. +..++.+. ...+.++++.+|..+..+ +-|+++...+ .
T Consensus 47 ~~VLDiGcGtG~~al~la~~~~~~~V~giD~s~~~l~~A~~~~~~~~l~~i~~~~~d~~~~~~~~~fDlV~~~~~-~--- 122 (187)
T PRK00107 47 ERVLDVGSGAGFPGIPLAIARPELKVTLVDSLGKKIAFLREVAAELGLKNVTVVHGRAEEFGQEEKFDVVTSRAV-A--- 122 (187)
T ss_pred CeEEEEcCCCCHHHHHHHHHCCCCeEEEEeCcHHHHHHHHHHHHHcCCCCEEEEeccHhhCCCCCCccEEEEccc-c---
Confidence 56899996 55556667666643 12222221 123459999999876322 2499998642 2
Q ss_pred hHHHHHHHHHhHHhcCCC
Q 042599 196 DEECLKILKNCCVQCNTG 213 (214)
Q Consensus 196 d~~~~~IL~~~~~Al~pg 213 (214)
....+++.+++.|+||
T Consensus 123 --~~~~~l~~~~~~LkpG 138 (187)
T PRK00107 123 --SLSDLVELCLPLLKPG 138 (187)
T ss_pred --CHHHHHHHHHHhcCCC
Confidence 3456889999999987
No 95
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=85.01 E-value=0.54 Score=32.33 Aligned_cols=43 Identities=16% Similarity=0.196 Sum_probs=36.2
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccC
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFF 71 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~ 71 (214)
||+.++++...+.|+++.|...|++...+ ...|.+|+.+..+.
T Consensus 5 la~~l~is~stvs~~l~~L~~~glI~r~~---------~~~~~lT~~g~~~~ 47 (96)
T smart00529 5 IAERLNVSPPTVTQMLKKLEKDGLVEYEP---------YRGITLTEKGRRLA 47 (96)
T ss_pred HHHHhCCChHHHHHHHHHHHHCCCEEEcC---------CCceEechhHHHHH
Confidence 57788999999999999999999999861 35788888877654
No 96
>PF06080 DUF938: Protein of unknown function (DUF938); InterPro: IPR010342 This family consists of several hypothetical proteins from both prokaryotes and eukaryotes. The function of this family is unknown.
Probab=84.81 E-value=5 Score=32.13 Aligned_cols=80 Identities=13% Similarity=0.039 Sum_probs=54.2
Q ss_pred ceEEcc-C-CccHHHHHHhCCCch--------H---HHHhhc--cCCCce-EEecCCCCcc-cC---------cc-ceee
Q 042599 134 PHTKAQ-S-GMDAFAAAAKDARMN--------N---LFNQSM--HNHTVV-EHVSGHMFIE-VP---------NG-QALF 186 (214)
Q Consensus 134 ~~~dvg-G-G~~~~~~~~~~P~l~--------~---v~~~~~--~~~~rv-~~~~gDff~~-~P---------~~-d~y~ 186 (214)
.++.|| | |+.+..+++..|++. . -|+.-. ...+++ ..+.-|.-++ .| .. |+++
T Consensus 28 ~vLEiaSGtGqHa~~FA~~lP~l~WqPSD~~~~~~~sI~a~~~~~~~~Nv~~P~~lDv~~~~w~~~~~~~~~~~~~D~i~ 107 (204)
T PF06080_consen 28 RVLEIASGTGQHAVYFAQALPHLTWQPSDPDDNLRPSIRAWIAEAGLPNVRPPLALDVSAPPWPWELPAPLSPESFDAIF 107 (204)
T ss_pred eEEEEcCCccHHHHHHHHHCCCCEEcCCCCChHHHhhHHHHHHhcCCcccCCCeEeecCCCCCccccccccCCCCcceee
Confidence 477888 5 888999999999761 1 121111 111121 2233344432 11 23 9999
Q ss_pred eehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 187 MKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 187 l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
.-+++|--+-+.+..+++.+.+.|+||
T Consensus 108 ~~N~lHI~p~~~~~~lf~~a~~~L~~g 134 (204)
T PF06080_consen 108 CINMLHISPWSAVEGLFAGAARLLKPG 134 (204)
T ss_pred ehhHHHhcCHHHHHHHHHHHHHhCCCC
Confidence 999999999999999999999999987
No 97
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis. TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.
Probab=84.69 E-value=0.45 Score=30.72 Aligned_cols=28 Identities=11% Similarity=0.111 Sum_probs=27.1
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+.+|++...+.+.|+-|...|+++..
T Consensus 28 Ia~~l~i~~~~v~~~L~~L~~~GlV~~~ 55 (68)
T PF01978_consen 28 IAEELGISRSTVYRALKSLEEKGLVERE 55 (68)
T ss_dssp HHHHHTSSHHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCCEEEE
Confidence 8999999999999999999999999987
No 98
>PF02082 Rrf2: Transcriptional regulator; InterPro: IPR000944 The following uncharacterised bacterial proteins have been shown to be evolutionary related, Desulfovibrio vulgaris protein Rrf2; Escherichia coli hypothetical proteins yfhP and yjeB; Bacillus subtilis hypothetical proteins yhdE, yrzC and ywgB; Mycobacterium tuberculosis hypothetical protein Rv1287; and Synechocystis sp. (strain PCC 6803) hypothetical protein slr0846. These are small proteins of 12 to 18kDa which seem to contain a signal sequence, and may represent a family of probable transcriptional regulators.; PDB: 3T8T_A 3T8R_A 3K69_A 3LWF_C 1XD7_A 2Y75_E 1YLF_C.
Probab=84.60 E-value=0.5 Score=31.90 Aligned_cols=40 Identities=18% Similarity=0.224 Sum_probs=31.6
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchh
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASV 66 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~ 66 (214)
||+.+++++..++++|..|...|+++..+ + .+|.|.++.-
T Consensus 31 iA~~~~i~~~~l~kil~~L~~~Gli~s~~--G-----~~GGy~L~~~ 70 (83)
T PF02082_consen 31 IAERLGISPSYLRKILQKLKKAGLIESSR--G-----RGGGYRLARP 70 (83)
T ss_dssp HHHHHTS-HHHHHHHHHHHHHTTSEEEET--S-----TTSEEEESS-
T ss_pred HHHHHCcCHHHHHHHHHHHhhCCeeEecC--C-----CCCceeecCC
Confidence 99999999999999999999999998753 1 1467877654
No 99
>COG3315 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=83.82 E-value=2.5 Score=35.82 Aligned_cols=90 Identities=14% Similarity=0.129 Sum_probs=66.3
Q ss_pred HHHHHhcCCCceEEccCCccHHHHHHhCCC--------chHHHHhhcc--------CCCceEEecCCCC-cccCc-----
Q 042599 124 LKNALLEGSVPHTKAQSGMDAFAAAAKDAR--------MNNLFNQSMH--------NHTVVEHVSGHMF-IEVPN----- 181 (214)
Q Consensus 124 ~~~~~~~g~~~~~dvgGG~~~~~~~~~~P~--------l~~v~~~~~~--------~~~rv~~~~gDff-~~~P~----- 181 (214)
+.+++..|..++|-+|.|.....+.-.+|. +|+|++--.. ...++.+|+.||+ +..|+
T Consensus 85 ~~~~~~~g~~qvViLgaGLDTRayRl~~~~~~~vfEvD~Pevi~~K~~~l~e~~~~~~~~~~~Va~Dl~~~dw~~~L~~~ 164 (297)
T COG3315 85 VRAALDAGIRQVVILGAGLDTRAYRLDWPKGTRVFEVDLPEVIEFKKKLLAERGATPPAHRRLVAVDLREDDWPQALAAA 164 (297)
T ss_pred HHHHHHhcccEEEEeccccccceeecCCCCCCeEEECCCcHHHHHHHHHhhhcCCCCCceEEEEeccccccchHHHHHhc
Confidence 445666776788999888777766655663 4666653221 1238999999999 44331
Q ss_pred c------ceeeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 182 G------QALFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 182 ~------d~y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
| -+.++-.+|--.+.+...++|++|....+||
T Consensus 165 G~d~~~pt~~iaEGLl~YL~~~~v~~ll~~I~~~~~~g 202 (297)
T COG3315 165 GFDRSRPTLWIAEGLLMYLPEEAVDRLLSRIAALSAPG 202 (297)
T ss_pred CCCcCCCeEEEeccccccCCHHHHHHHHHHHHHhCCCC
Confidence 2 4788888999999999999999999999887
No 100
>TIGR01983 UbiG ubiquinone biosynthesis O-methyltransferase. This model represents an O-methyltransferase believed to act at two points in the ubiquinone biosynthetic pathway in bacteria (UbiG) and fungi (COQ3). A separate methylase (MenG/UbiE) catalyzes the single C-methylation step. The most commonly used names for genes in this family do not indicate whether this gene is an O-methyl, or C-methyl transferase.
Probab=83.57 E-value=3.9 Score=32.47 Aligned_cols=80 Identities=10% Similarity=0.038 Sum_probs=52.1
Q ss_pred CCceEEccC--CccHHHHHHhCCCc------hHHHHhhcc----CC-CceEEecCCCCcc---cCc-cceeeeehhccCC
Q 042599 132 SVPHTKAQS--GMDAFAAAAKDARM------NNLFNQSMH----NH-TVVEHVSGHMFIE---VPN-GQALFMKWILSDW 194 (214)
Q Consensus 132 ~~~~~dvgG--G~~~~~~~~~~P~l------~~v~~~~~~----~~-~rv~~~~gDff~~---~P~-~d~y~l~~ILHdw 194 (214)
...++|+|. |.....+++..++. +..+..+.. .. .+++++.+|+.+- .|. .|++++.+++|..
T Consensus 46 ~~~vLdlG~G~G~~~~~l~~~~~~v~~iD~s~~~~~~a~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~D~i~~~~~l~~~ 125 (224)
T TIGR01983 46 GLRVLDVGCGGGLLSEPLARLGANVTGIDASEENIEVAKLHAKKDPLLKIEYRCTSVEDLAEKGAKSFDVVTCMEVLEHV 125 (224)
T ss_pred CCeEEEECCCCCHHHHHHHhcCCeEEEEeCCHHHHHHHHHHHHHcCCCceEEEeCCHHHhhcCCCCCccEEEehhHHHhC
Confidence 356899996 55555555554433 222322211 11 2588888887642 222 4999999999998
Q ss_pred ChHHHHHHHHHhHHhcCCC
Q 042599 195 DDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 195 ~d~~~~~IL~~~~~Al~pg 213 (214)
.+.+ .+|+++++.|+||
T Consensus 126 ~~~~--~~l~~~~~~L~~g 142 (224)
T TIGR01983 126 PDPQ--AFIRACAQLLKPG 142 (224)
T ss_pred CCHH--HHHHHHHHhcCCC
Confidence 8765 6899999999886
No 101
>PRK01581 speE spermidine synthase; Validated
Probab=82.92 E-value=4.9 Score=35.18 Aligned_cols=80 Identities=4% Similarity=-0.053 Sum_probs=49.6
Q ss_pred CceEEccC--CccHHHHHHhCC-------Cc-hHHHHhhcc------------CCCceEEecCCCCcccC--c-c-ceee
Q 042599 133 VPHTKAQS--GMDAFAAAAKDA-------RM-NNLFNQSMH------------NHTVVEHVSGHMFIEVP--N-G-QALF 186 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P-------~l-~~v~~~~~~------------~~~rv~~~~gDff~~~P--~-~-d~y~ 186 (214)
..++++|| |..+.++++..| |+ +.+++.+.. ..+|++++.+|-++-++ . . |+++
T Consensus 152 krVLIIGgGdG~tlrelLk~~~v~~It~VEIDpeVIelAr~~~~L~~~~~~~~~DpRV~vvi~Da~~fL~~~~~~YDVII 231 (374)
T PRK01581 152 KRVLILGGGDGLALREVLKYETVLHVDLVDLDGSMINMARNVPELVSLNKSAFFDNRVNVHVCDAKEFLSSPSSLYDVII 231 (374)
T ss_pred CEEEEECCCHHHHHHHHHhcCCCCeEEEEeCCHHHHHHHHhccccchhccccCCCCceEEEECcHHHHHHhcCCCccEEE
Confidence 45889987 444555665333 22 345554432 25799999999886443 2 2 8888
Q ss_pred eehhccCC----ChHHHHHHHHHhHHhcCCC
Q 042599 187 MKWILSDW----DDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 187 l~~ILHdw----~d~~~~~IL~~~~~Al~pg 213 (214)
+-- .... +.-.....++.|++.|+||
T Consensus 232 vDl-~DP~~~~~~~LyT~EFy~~~~~~LkPg 261 (374)
T PRK01581 232 IDF-PDPATELLSTLYTSELFARIATFLTED 261 (374)
T ss_pred EcC-CCccccchhhhhHHHHHHHHHHhcCCC
Confidence 762 1111 1133467899999999987
No 102
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=82.57 E-value=0.89 Score=29.56 Aligned_cols=39 Identities=21% Similarity=0.135 Sum_probs=32.4
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecch
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLAS 65 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~ 65 (214)
||+.+|++...+.|+|..|...|+++...+ .++.|..+.
T Consensus 28 La~~lgl~~~~v~r~L~~L~~~G~V~~~~~-------~~~~W~i~~ 66 (68)
T smart00550 28 LAKNLGLPKKEVNRVLYSLEKKGKVCKQGG-------TPPLWKLTD 66 (68)
T ss_pred HHHHHCCCHHHHHHHHHHHHHCCCEEecCC-------CCCceEeec
Confidence 999999999999999999999999987521 146777654
No 103
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=82.35 E-value=1.5 Score=34.10 Aligned_cols=59 Identities=12% Similarity=0.048 Sum_probs=48.3
Q ss_pred hhhHHHHHHHHhCchh-HH--cCCCC--CCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccc
Q 042599 2 VLPMTMKTAIQLGVLE-IM--LPKNN--KETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRY 69 (214)
Q Consensus 2 ~~~~~L~~a~~lgifd-~L--LA~~~--~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~ 69 (214)
|...+++..+.+.=|. -. ||+++ +++++-++.-|..|..+|+++.+ + +|.|..|..+-.
T Consensus 24 W~~~~ir~l~~l~~~~~d~~~iak~l~p~is~~ev~~sL~~L~~~gli~k~-----~----~g~y~~t~~~l~ 87 (171)
T PF14394_consen 24 WYHPAIRELLPLMPFAPDPEWIAKRLRPKISAEEVRDSLEFLEKLGLIKKD-----G----DGKYVQTDKSLT 87 (171)
T ss_pred hHHHHHHHHhhcCCCCCCHHHHHHHhcCCCCHHHHHHHHHHHHHCCCeEEC-----C----CCcEEEecceee
Confidence 5566777777777665 33 99999 99999999999999999999997 2 678988876544
No 104
>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A.
Probab=82.14 E-value=0.96 Score=30.48 Aligned_cols=57 Identities=18% Similarity=0.240 Sum_probs=37.9
Q ss_pred HhCchhHH----------cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhcccc
Q 042599 12 QLGVLEIM----------LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYF 70 (214)
Q Consensus 12 ~lgifd~L----------LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l 70 (214)
+++|...| |.+.+|++...|.+-|+.|...|+++..++. ..+.....|++|+.++..
T Consensus 2 Rl~Il~~L~~~~~~~f~~L~~~l~lt~g~Ls~hL~~Le~~GyV~~~k~~--~~~~p~t~~~lT~~Gr~~ 68 (80)
T PF13601_consen 2 RLAILALLYANEEATFSELKEELGLTDGNLSKHLKKLEEAGYVEVEKEF--EGRRPRTWYSLTDKGREA 68 (80)
T ss_dssp HHHHHHHHHHHSEEEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEEEE---SSS--EEEEEE-HHHHHH
T ss_pred HHHHHHHHhhcCCCCHHHHHHHhCcCHHHHHHHHHHHHHCCCEEEEEec--cCCCCeEEEEECHHHHHH
Confidence 45555565 8889999999999999999999999976431 100012358888887653
No 105
>TIGR02081 metW methionine biosynthesis protein MetW. This protein is found alongside MetX, of the enzyme that acylates homoserine as a first step toward methionine biosynthesis, in many species. It appears to act in methionine biosynthesis but is not fully characterized.
Probab=81.61 E-value=3.6 Score=32.19 Aligned_cols=77 Identities=9% Similarity=-0.007 Sum_probs=47.0
Q ss_pred CceEEccC--CccHHHHHHhCC------Cc-hHHHHhhccCCCceEEecCCCCc---ccCc--cceeeeehhccCCChHH
Q 042599 133 VPHTKAQS--GMDAFAAAAKDA------RM-NNLFNQSMHNHTVVEHVSGHMFI---EVPN--GQALFMKWILSDWDDEE 198 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P------~l-~~v~~~~~~~~~rv~~~~gDff~---~~P~--~d~y~l~~ILHdw~d~~ 198 (214)
..++|+|. |.....+.+... +. +..+..+.. .+++++.+|+.+ +++. .|++++..+||..+|
T Consensus 15 ~~iLDiGcG~G~~~~~l~~~~~~~~~giD~s~~~i~~a~~--~~~~~~~~d~~~~l~~~~~~sfD~Vi~~~~l~~~~d-- 90 (194)
T TIGR02081 15 SRVLDLGCGDGELLALLRDEKQVRGYGIEIDQDGVLACVA--RGVNVIQGDLDEGLEAFPDKSFDYVILSQTLQATRN-- 90 (194)
T ss_pred CEEEEeCCCCCHHHHHHHhccCCcEEEEeCCHHHHHHHHH--cCCeEEEEEhhhcccccCCCCcCEEEEhhHhHcCcC--
Confidence 57899996 544444433321 11 122322222 357888888865 3443 499999999998876
Q ss_pred HHHHHHHhHHhcCCC
Q 042599 199 CLKILKNCCVQCNTG 213 (214)
Q Consensus 199 ~~~IL~~~~~Al~pg 213 (214)
-.++|+++.+.++++
T Consensus 91 ~~~~l~e~~r~~~~~ 105 (194)
T TIGR02081 91 PEEILDEMLRVGRHA 105 (194)
T ss_pred HHHHHHHHHHhCCeE
Confidence 345677777766543
No 106
>COG3432 Predicted transcriptional regulator [Transcription]
Probab=80.69 E-value=2.1 Score=29.94 Aligned_cols=47 Identities=9% Similarity=0.173 Sum_probs=36.5
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccCC
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFFP 72 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~~ 72 (214)
|.-.++++-....+++..|+..|++...+ ++....|..|+.+..+..
T Consensus 37 i~y~aNlny~~~~~yi~~L~~~Gli~~~~------~~~~~~y~lT~KG~~fle 83 (95)
T COG3432 37 IIYGANLNYKRAQKYIEMLVEKGLIIKQD------NGRRKVYELTEKGKRFLE 83 (95)
T ss_pred eeeecCcCHHHHHHHHHHHHhCCCEEecc------CCccceEEEChhHHHHHH
Confidence 66678999999999999999999766642 111237999999987753
No 107
>TIGR00536 hemK_fam HemK family putative methylases. The gene hemK from E. coli was found to contribute to heme biosynthesis and originally suggested to be protoporphyrinogen oxidase (Medline 95189105). Functional analysis of the nearest homolog in Saccharomyces cerevisiae, YNL063w, finds it is not protoporphyrinogen oxidase and sequence analysis suggests that HemK homologs have S-adenosyl-methionine-dependent methyltransferase activity (Medline 99237242). Homologs are found, usually in a single copy, in nearly all completed genomes, but varying somewhat in apparent domain architecture. Both E. coli and H. influenzae have two members rather than one. The members from the Mycoplasmas have an additional C-terminal domain.
Probab=80.68 E-value=7 Score=32.67 Aligned_cols=81 Identities=10% Similarity=-0.013 Sum_probs=51.3
Q ss_pred CceEEccC--CccHHHHHHhCCCc--------hHHHHhhcc------CCCceEEecCCCCcccCc--cceeeee------
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMH------NHTVVEHVSGHMFIEVPN--GQALFMK------ 188 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~------~~~rv~~~~gDff~~~P~--~d~y~l~------ 188 (214)
..++|+|. |..+..++...|.. +..++.+.. ...+++++.+|+++++|. -|+++.-
T Consensus 116 ~~vLDlG~GsG~i~l~la~~~~~~~v~avDis~~al~~a~~n~~~~~~~~~v~~~~~d~~~~~~~~~fDlIvsNPPyi~~ 195 (284)
T TIGR00536 116 LHILDLGTGSGCIALALAYEFPNAEVIAVDISPDALAVAEENAEKNQLEHRVEFIQSNLFEPLAGQKIDIIVSNPPYIDE 195 (284)
T ss_pred CEEEEEeccHhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhccCcCCCccEEEECCCCCCc
Confidence 46899996 55556677777743 222322221 124699999999987764 3776642
Q ss_pred -------hhccCCCh----------HHHHHHHHHhHHhcCCC
Q 042599 189 -------WILSDWDD----------EECLKILKNCCVQCNTG 213 (214)
Q Consensus 189 -------~ILHdw~d----------~~~~~IL~~~~~Al~pg 213 (214)
.+++..|. +...+|++++.+.|+||
T Consensus 196 ~~~~~~~~~~~~eP~~AL~gg~dgl~~~~~ii~~a~~~L~~g 237 (284)
T TIGR00536 196 EDLADLPNVVRFEPLLALVGGDDGLNILRQIIELAPDYLKPN 237 (284)
T ss_pred chhhcCCcccccCcHHHhcCCCcHHHHHHHHHHHHHHhccCC
Confidence 33332221 35778999999999886
No 108
>KOG1975 consensus mRNA cap methyltransferase [RNA processing and modification]
Probab=80.57 E-value=7 Score=33.71 Aligned_cols=47 Identities=13% Similarity=0.225 Sum_probs=37.3
Q ss_pred ceEEecCCCCc-----cc----CccceeeeehhccC-CC-hHHHHHHHHHhHHhcCCC
Q 042599 167 VVEHVSGHMFI-----EV----PNGQALFMKWILSD-WD-DEECLKILKNCCVQCNTG 213 (214)
Q Consensus 167 rv~~~~gDff~-----~~----P~~d~y~l~~ILHd-w~-d~~~~~IL~~~~~Al~pg 213 (214)
.+.|..+|=|. -+ |+-|++-....+|- |. .+.++..|+|+++.|+||
T Consensus 173 ~a~f~~~Dc~~~~l~d~~e~~dp~fDivScQF~~HYaFetee~ar~~l~Nva~~LkpG 230 (389)
T KOG1975|consen 173 TAVFIAADCFKERLMDLLEFKDPRFDIVSCQFAFHYAFETEESARIALRNVAKCLKPG 230 (389)
T ss_pred eeEEEEeccchhHHHHhccCCCCCcceeeeeeeEeeeeccHHHHHHHHHHHHhhcCCC
Confidence 47889998773 12 23599999999997 65 566888899999999998
No 109
>TIGR03439 methyl_EasF probable methyltransferase domain, EasF family. This model represents an uncharacterized domain of about 300 amino acids with homology to S-adenosylmethionine-dependent methyltransferases. Proteins with this domain are exclusively fungal. A few, such as EasF from Neotyphodium lolii, are associated with the biosynthesis of ergot alkaloids, a class of fungal secondary metabolites. EasF may, in fact, be the AdoMet:dimethylallyltryptophan N-methyltransferase, the enzyme that follows tryptophan dimethylallyltransferase (DMATS) in ergot alkaloid biosynthesis. Several other members of this family, including mug158 (meiotically up-regulated gene 158 protein) from Schizosaccharomyces pombe, contain an additional uncharacterized domain DUF323 (pfam03781).
Probab=80.47 E-value=2.3 Score=36.50 Aligned_cols=49 Identities=10% Similarity=0.112 Sum_probs=39.3
Q ss_pred CCceE--EecCCCCcc---cC-----c-c-ceeeeehhccCCChHHHHHHHHHhHH-hcCCC
Q 042599 165 HTVVE--HVSGHMFIE---VP-----N-G-QALFMKWILSDWDDEECLKILKNCCV-QCNTG 213 (214)
Q Consensus 165 ~~rv~--~~~gDff~~---~P-----~-~-d~y~l~~ILHdw~d~~~~~IL~~~~~-Al~pg 213 (214)
.+.|+ -+.|||.++ +| . . -++++...+.|++++++..+|+++++ .|.||
T Consensus 129 ~p~l~v~~l~gdy~~~l~~l~~~~~~~~~r~~~flGSsiGNf~~~ea~~fL~~~~~~~l~~~ 190 (319)
T TIGR03439 129 FSHVRCAGLLGTYDDGLAWLKRPENRSRPTTILWLGSSIGNFSRPEAAAFLAGFLATALSPS 190 (319)
T ss_pred CCCeEEEEEEecHHHHHhhcccccccCCccEEEEeCccccCCCHHHHHHHHHHHHHhhCCCC
Confidence 34454 489999763 22 1 2 68889999999999999999999999 99886
No 110
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=80.16 E-value=0.63 Score=27.75 Aligned_cols=26 Identities=15% Similarity=0.233 Sum_probs=23.5
Q ss_pred cCCCCCCChhhHHHHHHHHhcCccee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLT 45 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~ 45 (214)
||+.+|++...+.+.++-|...|+++
T Consensus 23 la~~~~is~~tv~~~l~~L~~~g~I~ 48 (48)
T PF13412_consen 23 LAEKLGISRSTVNRYLKKLEEKGLIE 48 (48)
T ss_dssp HHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred HHHHhCCCHHHHHHHHHHHHHCcCcC
Confidence 89999999999999999999999874
No 111
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=79.69 E-value=1.6 Score=33.10 Aligned_cols=56 Identities=16% Similarity=0.225 Sum_probs=40.7
Q ss_pred HHHHHHHHhCchhH--H-----cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhc
Q 042599 5 MTMKTAIQLGVLEI--M-----LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVS 67 (214)
Q Consensus 5 ~~L~~a~~lgifd~--L-----LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s 67 (214)
.+|++.+.|-.-.- + ||+..|+++..|.|||..|...|+++-.. + ..|.|.++.-.
T Consensus 9 yal~~L~~LA~~~~~~~~s~~~IA~~~~is~~~L~kil~~L~kaGlV~S~r--G-----~~GGy~Lar~~ 71 (150)
T COG1959 9 YALRALLYLALLPGGGPVSSAEIAERQGISPSYLEKILSKLRKAGLVKSVR--G-----KGGGYRLARPP 71 (150)
T ss_pred HHHHHHHHHHhCCCCCcccHHHHHHHhCcCHHHHHHHHHHHHHcCCEEeec--C-----CCCCccCCCCh
Confidence 35555555543222 2 99999999999999999999999999763 1 15678776543
No 112
>COG5459 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=79.27 E-value=1.6 Score=37.93 Aligned_cols=80 Identities=8% Similarity=0.061 Sum_probs=48.8
Q ss_pred ceEEcc-C-CccHHHHHHhCCCchH------------HHHhhcc--CCCceEEecCCCCc---ccCccceeeeeh----h
Q 042599 134 PHTKAQ-S-GMDAFAAAAKDARMNN------------LFNQSMH--NHTVVEHVSGHMFI---EVPNGQALFMKW----I 190 (214)
Q Consensus 134 ~~~dvg-G-G~~~~~~~~~~P~l~~------------v~~~~~~--~~~rv~~~~gDff~---~~P~~d~y~l~~----I 190 (214)
.++||| | |..+++...-.|++.. |++.... ..++...-..|+-+ ++|.+|.|.+-- +
T Consensus 116 siLDvG~GPgtgl~A~n~i~Pdl~sa~ile~sp~lrkV~~tl~~nv~t~~td~r~s~vt~dRl~lp~ad~ytl~i~~~eL 195 (484)
T COG5459 116 SILDVGAGPGTGLWALNDIWPDLKSAVILEASPALRKVGDTLAENVSTEKTDWRASDVTEDRLSLPAADLYTLAIVLDEL 195 (484)
T ss_pred hhhccCCCCchhhhhhcccCCCchhhhhhccCHHHHHHHHHHHhhcccccCCCCCCccchhccCCCccceeehhhhhhhh
Confidence 489999 5 8889988888888753 2222111 12233445666663 577777666554 5
Q ss_pred ccCCChHHHHHHHHHhHHhcCCC
Q 042599 191 LSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 191 LHdw~d~~~~~IL~~~~~Al~pg 213 (214)
|||=+.......++++-.-+.||
T Consensus 196 l~d~~ek~i~~~ie~lw~l~~~g 218 (484)
T COG5459 196 LPDGNEKPIQVNIERLWNLLAPG 218 (484)
T ss_pred ccccCcchHHHHHHHHHHhccCC
Confidence 55555555555777776666665
No 113
>KOG2361 consensus Predicted methyltransferase [General function prediction only]
Probab=77.26 E-value=5.8 Score=32.70 Aligned_cols=80 Identities=14% Similarity=0.178 Sum_probs=59.2
Q ss_pred ceEEcc-C-CccHHHHHHhCCC--c--------hHHHHhhcc----CCCceEEecCCCCc-----ccCcc--ceeeeehh
Q 042599 134 PHTKAQ-S-GMDAFAAAAKDAR--M--------NNLFNQSMH----NHTVVEHVSGHMFI-----EVPNG--QALFMKWI 190 (214)
Q Consensus 134 ~~~dvg-G-G~~~~~~~~~~P~--l--------~~v~~~~~~----~~~rv~~~~gDff~-----~~P~~--d~y~l~~I 190 (214)
.+..|| | |.++|-+++.+|+ + +..++.... ..+++..-..|+-. +.+.| |...|=.|
T Consensus 74 ~ilEvGCGvGNtvfPll~~~~n~~l~v~acDfsp~Ai~~vk~~~~~~e~~~~afv~Dlt~~~~~~~~~~~svD~it~IFv 153 (264)
T KOG2361|consen 74 TILEVGCGVGNTVFPLLKTSPNNRLKVYACDFSPRAIELVKKSSGYDESRVEAFVWDLTSPSLKEPPEEGSVDIITLIFV 153 (264)
T ss_pred hheeeccCCCcccchhhhcCCCCCeEEEEcCCChHHHHHHHhccccchhhhcccceeccchhccCCCCcCccceEEEEEE
Confidence 468888 4 8999999999887 4 333333222 23466655666653 22344 99999999
Q ss_pred ccCCChHHHHHHHHHhHHhcCCC
Q 042599 191 LSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 191 LHdw~d~~~~~IL~~~~~Al~pg 213 (214)
|.--+.+.-...++|++.-++||
T Consensus 154 LSAi~pek~~~a~~nl~~llKPG 176 (264)
T KOG2361|consen 154 LSAIHPEKMQSVIKNLRTLLKPG 176 (264)
T ss_pred EeccChHHHHHHHHHHHHHhCCC
Confidence 99999999999999999999998
No 114
>TIGR00417 speE spermidine synthase. the SpeE subunit of spermidine synthase catalysesthe reaction (putrescine + S-adenosylmethioninamine = spermidine + 5'-methylthioadenosine) and is involved in polyamine biosynthesis and in the biosynthesis of spermidine from arganine. The region between residues 77 and 120 of the seed alignment is thought to be involved in binding to decarboxylated SAM.
Probab=76.88 E-value=12 Score=31.09 Aligned_cols=81 Identities=9% Similarity=-0.057 Sum_probs=48.1
Q ss_pred CceEEccC--CccHHHHHHhCCC-------c-hHHHHhhcc---------CCCceEEecCCCCccc---Ccc-ceeeeeh
Q 042599 133 VPHTKAQS--GMDAFAAAAKDAR-------M-NNLFNQSMH---------NHTVVEHVSGHMFIEV---PNG-QALFMKW 189 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~-------l-~~v~~~~~~---------~~~rv~~~~gDff~~~---P~~-d~y~l~~ 189 (214)
..++++|| |..+.++++..+. + +.+++.+.. ..++++++.+|.++-+ ++. |++++..
T Consensus 74 ~~VL~iG~G~G~~~~~ll~~~~~~~v~~veid~~vi~~a~~~~~~~~~~~~~~~v~i~~~D~~~~l~~~~~~yDvIi~D~ 153 (270)
T TIGR00417 74 KHVLVIGGGDGGVLREVLKHKSVEKATLVDIDEKVIELSKKFLPSLAGSYDDPRVDLQIDDGFKFLADTENTFDVIIVDS 153 (270)
T ss_pred CEEEEEcCCchHHHHHHHhCCCcceEEEEeCCHHHHHHHHHHhHhhcccccCCceEEEECchHHHHHhCCCCccEEEEeC
Confidence 46889987 4444555554321 1 233333221 2468999999987522 333 9988765
Q ss_pred hccCCChHH--HHHHHHHhHHhcCCC
Q 042599 190 ILSDWDDEE--CLKILKNCCVQCNTG 213 (214)
Q Consensus 190 ILHdw~d~~--~~~IL~~~~~Al~pg 213 (214)
.-+.-+... ....++++++.|+||
T Consensus 154 ~~~~~~~~~l~~~ef~~~~~~~L~pg 179 (270)
T TIGR00417 154 TDPVGPAETLFTKEFYELLKKALNED 179 (270)
T ss_pred CCCCCcccchhHHHHHHHHHHHhCCC
Confidence 432222222 568889999999887
No 115
>TIGR01610 phage_O_Nterm phage replication protein O, N-terminal domain. This model represents the N-terminal region of the phage lambda replication protein O and homologous regions of other phage proteins.
Probab=76.64 E-value=1.7 Score=30.24 Aligned_cols=28 Identities=7% Similarity=0.058 Sum_probs=26.9
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+.+|++...+.|+|..|...|++...
T Consensus 53 La~~~g~sr~tVsr~L~~Le~~GlI~r~ 80 (95)
T TIGR01610 53 IAELTGLSRTHVSDAIKSLARRRIIFRQ 80 (95)
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCCeeee
Confidence 9999999999999999999999999975
No 116
>PRK03612 spermidine synthase; Provisional
Probab=76.26 E-value=9 Score=35.12 Aligned_cols=79 Identities=5% Similarity=-0.021 Sum_probs=48.7
Q ss_pred CceEEccC--CccHHHHHHhCCCc---------hHHHHhhcc------------CCCceEEecCCCCcc---cCcc-cee
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM---------NNLFNQSMH------------NHTVVEHVSGHMFIE---VPNG-QAL 185 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l---------~~v~~~~~~------------~~~rv~~~~gDff~~---~P~~-d~y 185 (214)
..++|+|| |..+.++++ +|.. +.+++.+.. .++|++++.+|.++- .++. |++
T Consensus 299 ~rVL~IG~G~G~~~~~ll~-~~~v~~v~~VEid~~vi~~ar~~~~l~~~~~~~~~dprv~vi~~Da~~~l~~~~~~fDvI 377 (521)
T PRK03612 299 RRVLVLGGGDGLALREVLK-YPDVEQVTLVDLDPAMTELARTSPALRALNGGALDDPRVTVVNDDAFNWLRKLAEKFDVI 377 (521)
T ss_pred CeEEEEcCCccHHHHHHHh-CCCcCeEEEEECCHHHHHHHHhCCcchhhhccccCCCceEEEEChHHHHHHhCCCCCCEE
Confidence 45899997 555566665 5531 445554433 247999999998863 2333 888
Q ss_pred eeehhccCCChH----HHHHHHHHhHHhcCCC
Q 042599 186 FMKWILSDWDDE----ECLKILKNCCVQCNTG 213 (214)
Q Consensus 186 ~l~~ILHdw~d~----~~~~IL~~~~~Al~pg 213 (214)
++.-- +.+... ....+++++++.|+||
T Consensus 378 i~D~~-~~~~~~~~~L~t~ef~~~~~~~L~pg 408 (521)
T PRK03612 378 IVDLP-DPSNPALGKLYSVEFYRLLKRRLAPD 408 (521)
T ss_pred EEeCC-CCCCcchhccchHHHHHHHHHhcCCC
Confidence 66421 112111 1346889999999987
No 117
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=76.09 E-value=1.5 Score=27.12 Aligned_cols=36 Identities=19% Similarity=0.244 Sum_probs=30.5
Q ss_pred hHHHHHHHHhCchhHH-------cCCCCCCChhhHHHHHHHHh
Q 042599 4 PMTMKTAIQLGVLEIM-------LPKNNKETPIILDRMLRLLA 39 (214)
Q Consensus 4 ~~~L~~a~~lgifd~L-------LA~~~~~~~~~l~rlLr~L~ 39 (214)
-.+|.+|+++|-||.= ||+.+|++...+..-||-..
T Consensus 6 ~e~L~~A~~~GYfd~PR~~tl~elA~~lgis~st~~~~LRrae 48 (53)
T PF04967_consen 6 REILKAAYELGYFDVPRRITLEELAEELGISKSTVSEHLRRAE 48 (53)
T ss_pred HHHHHHHHHcCCCCCCCcCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 4689999999999965 99999999998888887543
No 118
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=75.28 E-value=1.8 Score=29.39 Aligned_cols=49 Identities=18% Similarity=0.205 Sum_probs=34.7
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccC
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFF 71 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~ 71 (214)
||+.++++...+.+.++-|...|+++.... ..+.....|..|+.+..+.
T Consensus 30 la~~~~~s~~~i~~~l~~L~~~g~v~~~~~---~~~~r~~~~~lT~~g~~~~ 78 (101)
T smart00347 30 LAKRLGVSPSTVTRVLDRLEKKGLIRRLPS---PEDRRSVLVSLTEEGRELI 78 (101)
T ss_pred HHHHHCCCchhHHHHHHHHHHCCCeEecCC---CCCCCeEEEEECHhHHHHH
Confidence 788899999999999999999999987621 0000123466666665544
No 119
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=75.26 E-value=2.8 Score=31.24 Aligned_cols=43 Identities=9% Similarity=0.181 Sum_probs=34.5
Q ss_pred HHHHHHHHhCchh---HH----cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 5 MTMKTAIQLGVLE---IM----LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 5 ~~L~~a~~lgifd---~L----LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
-||++.+.++... .+ ||+..|++...++++|+.|...|+++..
T Consensus 9 YAl~~~i~la~~~~g~~~s~~~ia~~~~is~~~vrk~l~~L~~~Glv~s~ 58 (141)
T PRK11014 9 YGLRALIYMASLPEGRMTSISEVTEVYGVSRNHMVKIINQLSRAGYVTAV 58 (141)
T ss_pred HHHHHHHHHhcCCCCCccCHHHHHHHHCcCHHHHHHHHHHHHhCCEEEEe
Confidence 3566666665432 12 9999999999999999999999999876
No 120
>TIGR02010 IscR iron-sulfur cluster assembly transcription factor IscR. This model describes IscR, an iron-sulfur binding transcription factor of the ISC iron-sulfur cluster assembly system.
Probab=75.22 E-value=2.2 Score=31.54 Aligned_cols=39 Identities=10% Similarity=0.126 Sum_probs=31.9
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecch
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLAS 65 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~ 65 (214)
||+..++++..++++|+.|...|++..... . .|.|.++.
T Consensus 31 ia~~~~ip~~~l~kil~~L~~~glv~s~~G---~----~Ggy~l~~ 69 (135)
T TIGR02010 31 ISERQGISLSYLEQLFAKLRKAGLVKSVRG---P----GGGYQLGR 69 (135)
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCceEEEeC---C----CCCEeccC
Confidence 999999999999999999999999986421 1 45676655
No 121
>PRK14968 putative methyltransferase; Provisional
Probab=75.17 E-value=14 Score=28.19 Aligned_cols=81 Identities=12% Similarity=0.055 Sum_probs=47.7
Q ss_pred CceEEccC--CccHHHHHHhCCCc------hHHHHhhcc------CCCc-eEEecCCCCcccCc--cceeeeehhccC--
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM------NNLFNQSMH------NHTV-VEHVSGHMFIEVPN--GQALFMKWILSD-- 193 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l------~~v~~~~~~------~~~r-v~~~~gDff~~~P~--~d~y~l~~ILHd-- 193 (214)
..++|+|+ |..+..++....++ +..++.+.. ...+ ++++.+|+++++++ -|+++...-++.
T Consensus 25 ~~vLd~G~G~G~~~~~l~~~~~~v~~~D~s~~~~~~a~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~d~vi~n~p~~~~~ 104 (188)
T PRK14968 25 DRVLEVGTGSGIVAIVAAKNGKKVVGVDINPYAVECAKCNAKLNNIRNNGVEVIRSDLFEPFRGDKFDVILFNPPYLPTE 104 (188)
T ss_pred CEEEEEccccCHHHHHHHhhcceEEEEECCHHHHHHHHHHHHHcCCCCcceEEEeccccccccccCceEEEECCCcCCCC
Confidence 46899997 55555555543222 223332211 1223 88999999987764 388775433221
Q ss_pred ---------------CC--hHHHHHHHHHhHHhcCCC
Q 042599 194 ---------------WD--DEECLKILKNCCVQCNTG 213 (214)
Q Consensus 194 ---------------w~--d~~~~~IL~~~~~Al~pg 213 (214)
.. ......+++++.+.|+||
T Consensus 105 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~Lk~g 141 (188)
T PRK14968 105 EEEEWDDWLNYALSGGKDGREVIDRFLDEVGRYLKPG 141 (188)
T ss_pred chhhhhhhhhhhhccCcChHHHHHHHHHHHHHhcCCC
Confidence 11 223456899999999986
No 122
>PRK11705 cyclopropane fatty acyl phospholipid synthase; Provisional
Probab=73.97 E-value=14 Score=32.55 Aligned_cols=80 Identities=8% Similarity=-0.150 Sum_probs=53.1
Q ss_pred CceEEccC--CccHHHHHHhCC-Cc------hHHHHhhcc--CCCceEEecCCCCcccCc-cceeeeehhccCCChHHHH
Q 042599 133 VPHTKAQS--GMDAFAAAAKDA-RM------NNLFNQSMH--NHTVVEHVSGHMFIEVPN-GQALFMKWILSDWDDEECL 200 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P-~l------~~v~~~~~~--~~~rv~~~~gDff~~~P~-~d~y~l~~ILHdw~d~~~~ 200 (214)
..++|+|. |..+..+++... ++ +..++.+.. ....+++...|+.+. +. -|+++...++|..+++.-.
T Consensus 169 ~rVLDIGcG~G~~a~~la~~~g~~V~giDlS~~~l~~A~~~~~~l~v~~~~~D~~~l-~~~fD~Ivs~~~~ehvg~~~~~ 247 (383)
T PRK11705 169 MRVLDIGCGWGGLARYAAEHYGVSVVGVTISAEQQKLAQERCAGLPVEIRLQDYRDL-NGQFDRIVSVGMFEHVGPKNYR 247 (383)
T ss_pred CEEEEeCCCccHHHHHHHHHCCCEEEEEeCCHHHHHHHHHHhccCeEEEEECchhhc-CCCCCEEEEeCchhhCChHHHH
Confidence 56899996 554444554432 11 222332222 122478888887643 43 4998888888888888888
Q ss_pred HHHHHhHHhcCCC
Q 042599 201 KILKNCCVQCNTG 213 (214)
Q Consensus 201 ~IL~~~~~Al~pg 213 (214)
.+++++.+.|+||
T Consensus 248 ~~l~~i~r~LkpG 260 (383)
T PRK11705 248 TYFEVVRRCLKPD 260 (383)
T ss_pred HHHHHHHHHcCCC
Confidence 9999999999997
No 123
>PRK05134 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional
Probab=73.92 E-value=9.4 Score=30.54 Aligned_cols=79 Identities=9% Similarity=0.004 Sum_probs=48.8
Q ss_pred CceEEccC--CccHHHHHHhCCCc------hHHHHhhc----cCCCceEEecCCCCcc--cC-c-cceeeeehhccCCCh
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM------NNLFNQSM----HNHTVVEHVSGHMFIE--VP-N-GQALFMKWILSDWDD 196 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l------~~v~~~~~----~~~~rv~~~~gDff~~--~P-~-~d~y~l~~ILHdw~d 196 (214)
..++|+|. |.....+.+..... +..+..+. .....+++..+|+.+- .+ . -|++++.++++..++
T Consensus 50 ~~vLdiG~G~G~~~~~l~~~~~~v~~iD~s~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~fD~Ii~~~~l~~~~~ 129 (233)
T PRK05134 50 KRVLDVGCGGGILSESMARLGADVTGIDASEENIEVARLHALESGLKIDYRQTTAEELAAEHPGQFDVVTCMEMLEHVPD 129 (233)
T ss_pred CeEEEeCCCCCHHHHHHHHcCCeEEEEcCCHHHHHHHHHHHHHcCCceEEEecCHHHhhhhcCCCccEEEEhhHhhccCC
Confidence 45899986 54444454443221 12222221 1123577777776542 22 2 399999999998876
Q ss_pred HHHHHHHHHhHHhcCCC
Q 042599 197 EECLKILKNCCVQCNTG 213 (214)
Q Consensus 197 ~~~~~IL~~~~~Al~pg 213 (214)
. ..+|+++.+.|+||
T Consensus 130 ~--~~~l~~~~~~L~~g 144 (233)
T PRK05134 130 P--ASFVRACAKLVKPG 144 (233)
T ss_pred H--HHHHHHHHHHcCCC
Confidence 5 46899999999886
No 124
>PRK07402 precorrin-6B methylase; Provisional
Probab=73.77 E-value=13 Score=28.99 Aligned_cols=75 Identities=12% Similarity=0.027 Sum_probs=45.8
Q ss_pred CceEEccC--CccHHHHHHhCCCc--------hHHHHhhcc-----CCCceEEecCCCCcc---cC-ccceeeeehhccC
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMH-----NHTVVEHVSGHMFIE---VP-NGQALFMKWILSD 193 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~-----~~~rv~~~~gDff~~---~P-~~d~y~l~~ILHd 193 (214)
..++|+|. |.....+++..|.. +..++.+.. ...+++++.+|..+. ++ ..|.+++ +
T Consensus 42 ~~VLDiG~G~G~~~~~la~~~~~~~V~~vD~s~~~~~~a~~n~~~~~~~~v~~~~~d~~~~~~~~~~~~d~v~~-----~ 116 (196)
T PRK07402 42 SVLWDIGAGTGTIPVEAGLLCPKGRVIAIERDEEVVNLIRRNCDRFGVKNVEVIEGSAPECLAQLAPAPDRVCI-----E 116 (196)
T ss_pred CEEEEeCCCCCHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCCeEEEECchHHHHhhCCCCCCEEEE-----E
Confidence 56899997 54455566555542 223332221 235799999998652 22 2355443 2
Q ss_pred CChHHHHHHHHHhHHhcCCC
Q 042599 194 WDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 194 w~d~~~~~IL~~~~~Al~pg 213 (214)
. .....++|+++.+.|+||
T Consensus 117 ~-~~~~~~~l~~~~~~Lkpg 135 (196)
T PRK07402 117 G-GRPIKEILQAVWQYLKPG 135 (196)
T ss_pred C-CcCHHHHHHHHHHhcCCC
Confidence 2 345678999999999987
No 125
>TIGR00738 rrf2_super rrf2 family protein (putative transcriptional regulator). This model represents a superfamily of probable transcriptional regulators. One member, RRF2 of Desulfovibrio vulgaris is an apparent regulatory protein experimentally (MEDLINE:97293189). The N-terminal region appears related to the DNA-binding biotin repressor region of the BirA bifunctional according to results after three rounds of PSI-BLAST with a fairly high stringency.
Probab=73.43 E-value=2 Score=31.42 Aligned_cols=28 Identities=14% Similarity=0.262 Sum_probs=26.6
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+.+++++..++++|+.|...|++...
T Consensus 31 ia~~~~i~~~~v~~il~~L~~~gli~~~ 58 (132)
T TIGR00738 31 IAERQGISRSYLEKILRTLRRAGLVESV 58 (132)
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCcEEec
Confidence 8999999999999999999999999864
No 126
>PF03848 TehB: Tellurite resistance protein TehB; InterPro: IPR015985 Tellurite resistance protein TehB is part of a tellurite-reducing operon tehA and tehB. When present in high copy number, TehB is responsible for potassium tellurite resistance, probably by increasing the reduction rate of tellurite to metallic tellurium within the bacterium. TehB is a cytoplasmic protein which possesses three conserved motifs (I, II, and III) found in S-adenosyl-L-methionine (SAM)-dependent non-nucleic acid methyltransferases []. Conformational changes in TehB are observed upon binding of both tellurite and SAM, suggesting that TehB utilises a methyltransferase activity in the detoxification of tellurite. This entry represents the methyltransferase domain found in all TehB proteins.; PDB: 2KW5_A 3MER_B 3M70_A 2I6G_A 4DQ0_D 2XVA_B 2XVM_A.
Probab=73.24 E-value=9.2 Score=30.31 Aligned_cols=81 Identities=11% Similarity=0.050 Sum_probs=52.4
Q ss_pred CceEEccC--CccHHHHHHhCCCc----------hHHHHhhccCCCceEEecCCCCcc-cCcc-ceeeeehhccCCChHH
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM----------NNLFNQSMHNHTVVEHVSGHMFIE-VPNG-QALFMKWILSDWDDEE 198 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l----------~~v~~~~~~~~~rv~~~~gDff~~-~P~~-d~y~l~~ILHdw~d~~ 198 (214)
...+|+|. |..+.-++++-=+. ..+-+.+....-.|+....|+.+. +|.. |+++...|+|-.+.+.
T Consensus 32 g~~LDlgcG~GRNalyLA~~G~~VtAvD~s~~al~~l~~~a~~~~l~i~~~~~Dl~~~~~~~~yD~I~st~v~~fL~~~~ 111 (192)
T PF03848_consen 32 GKALDLGCGEGRNALYLASQGFDVTAVDISPVALEKLQRLAEEEGLDIRTRVADLNDFDFPEEYDFIVSTVVFMFLQREL 111 (192)
T ss_dssp SEEEEES-TTSHHHHHHHHTT-EEEEEESSHHHHHHHHHHHHHTT-TEEEEE-BGCCBS-TTTEEEEEEESSGGGS-GGG
T ss_pred CcEEEcCCCCcHHHHHHHHCCCeEEEEECCHHHHHHHHHHHhhcCceeEEEEecchhccccCCcCEEEEEEEeccCCHHH
Confidence 46889995 66666555543222 122222222233489999998863 4443 9988888899999999
Q ss_pred HHHHHHHhHHhcCCC
Q 042599 199 CLKILKNCCVQCNTG 213 (214)
Q Consensus 199 ~~~IL~~~~~Al~pg 213 (214)
.-+|++++.++++||
T Consensus 112 ~~~i~~~m~~~~~pG 126 (192)
T PF03848_consen 112 RPQIIENMKAATKPG 126 (192)
T ss_dssp HHHHHHHHHHTEEEE
T ss_pred HHHHHHHHHhhcCCc
Confidence 999999999999986
No 127
>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional
Probab=73.10 E-value=8.7 Score=30.63 Aligned_cols=81 Identities=12% Similarity=0.068 Sum_probs=48.0
Q ss_pred CceEEccCCccHH--HHHHhCCCchHH--HH-hhccCCCceEEecCCCCcc---------cCc--cceeeeehhccCCCh
Q 042599 133 VPHTKAQSGMDAF--AAAAKDARMNNL--FN-QSMHNHTVVEHVSGHMFIE---------VPN--GQALFMKWILSDWDD 196 (214)
Q Consensus 133 ~~~~dvgGG~~~~--~~~~~~P~l~~v--~~-~~~~~~~rv~~~~gDff~~---------~P~--~d~y~l~~ILHdw~d 196 (214)
..++|+|.|.+.+ .+++..+.-..| ++ ..|...+.|+++.+|+.++ .+. .|+++-.-..|-+.+
T Consensus 53 ~~VLDlG~GtG~~t~~l~~~~~~~~~V~aVDi~~~~~~~~v~~i~~D~~~~~~~~~i~~~~~~~~~D~V~S~~~~~~~g~ 132 (209)
T PRK11188 53 MTVVDLGAAPGGWSQYAVTQIGDKGRVIACDILPMDPIVGVDFLQGDFRDELVLKALLERVGDSKVQVVMSDMAPNMSGT 132 (209)
T ss_pred CEEEEEcccCCHHHHHHHHHcCCCceEEEEecccccCCCCcEEEecCCCChHHHHHHHHHhCCCCCCEEecCCCCccCCC
Confidence 4699999755444 455554321111 11 1133446799999999873 332 388876444433322
Q ss_pred ---H------HHHHHHHHhHHhcCCC
Q 042599 197 ---E------ECLKILKNCCVQCNTG 213 (214)
Q Consensus 197 ---~------~~~~IL~~~~~Al~pg 213 (214)
+ .+..+|+.+.+.|+||
T Consensus 133 ~~~d~~~~~~~~~~~L~~~~~~LkpG 158 (209)
T PRK11188 133 PAVDIPRAMYLVELALDMCRDVLAPG 158 (209)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 1 1357899999999997
No 128
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=72.27 E-value=2.8 Score=32.36 Aligned_cols=39 Identities=10% Similarity=0.120 Sum_probs=32.2
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecch
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLAS 65 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~ 65 (214)
||+..++++..|.+||+.|...|++.... + . +|.|.+..
T Consensus 31 IA~~~~ip~~~l~kIl~~L~~aGLv~s~r--G-~----~GGy~Lar 69 (164)
T PRK10857 31 ISERQGISLSYLEQLFSRLRKNGLVSSVR--G-P----GGGYLLGK 69 (164)
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCCEEeCC--C-C----CCCeeccC
Confidence 99999999999999999999999999752 1 1 45676644
No 129
>PRK04266 fibrillarin; Provisional
Probab=72.22 E-value=20 Score=29.08 Aligned_cols=76 Identities=7% Similarity=0.001 Sum_probs=45.6
Q ss_pred CceEEccC--CccHHHHHHhCCC-------c-hHHHHhh---ccCCCceEEecCCCCcc-----cCc-cceeeeehhccC
Q 042599 133 VPHTKAQS--GMDAFAAAAKDAR-------M-NNLFNQS---MHNHTVVEHVSGHMFIE-----VPN-GQALFMKWILSD 193 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~-------l-~~v~~~~---~~~~~rv~~~~gDff~~-----~P~-~d~y~l~~ILHd 193 (214)
..++|+|. |.....+.+..+. . +..++.. ....++|+++.+|..++ ++. -|+++ ||
T Consensus 74 ~~VlD~G~G~G~~~~~la~~v~~g~V~avD~~~~ml~~l~~~a~~~~nv~~i~~D~~~~~~~~~l~~~~D~i~-----~d 148 (226)
T PRK04266 74 SKVLYLGAASGTTVSHVSDIVEEGVVYAVEFAPRPMRELLEVAEERKNIIPILADARKPERYAHVVEKVDVIY-----QD 148 (226)
T ss_pred CEEEEEccCCCHHHHHHHHhcCCCeEEEEECCHHHHHHHHHHhhhcCCcEEEECCCCCcchhhhccccCCEEE-----EC
Confidence 56899996 5545555555541 1 2222211 11235789999998753 222 26655 66
Q ss_pred CChH-HHHHHHHHhHHhcCCC
Q 042599 194 WDDE-ECLKILKNCCVQCNTG 213 (214)
Q Consensus 194 w~d~-~~~~IL~~~~~Al~pg 213 (214)
-++. ....+|+++++.|+||
T Consensus 149 ~~~p~~~~~~L~~~~r~LKpG 169 (226)
T PRK04266 149 VAQPNQAEIAIDNAEFFLKDG 169 (226)
T ss_pred CCChhHHHHHHHHHHHhcCCC
Confidence 5544 3456789999999998
No 130
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=72.01 E-value=14 Score=29.09 Aligned_cols=76 Identities=16% Similarity=0.132 Sum_probs=52.3
Q ss_pred CCceEEccC--CccHHHHHHhCCCch-----------HHHHhhcc--CCCceEEecCCCCcccC---ccceeeeehhccC
Q 042599 132 SVPHTKAQS--GMDAFAAAAKDARMN-----------NLFNQSMH--NHTVVEHVSGHMFIEVP---NGQALFMKWILSD 193 (214)
Q Consensus 132 ~~~~~dvgG--G~~~~~~~~~~P~l~-----------~v~~~~~~--~~~rv~~~~gDff~~~P---~~d~y~l~~ILHd 193 (214)
...+.|||. |....+++...|... ..+++..+ ..++++.+.||--+.++ +-|++|+.-
T Consensus 35 g~~l~DIGaGtGsi~iE~a~~~p~~~v~AIe~~~~a~~~~~~N~~~fg~~n~~vv~g~Ap~~L~~~~~~daiFIGG---- 110 (187)
T COG2242 35 GDRLWDIGAGTGSITIEWALAGPSGRVIAIERDEEALELIERNAARFGVDNLEVVEGDAPEALPDLPSPDAIFIGG---- 110 (187)
T ss_pred CCEEEEeCCCccHHHHHHHHhCCCceEEEEecCHHHHHHHHHHHHHhCCCcEEEEeccchHhhcCCCCCCEEEECC----
Confidence 357999996 666677776677541 22222211 36789999999776444 469999983
Q ss_pred CChHHHHHHHHHhHHhcCCC
Q 042599 194 WDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 194 w~d~~~~~IL~~~~~Al~pg 213 (214)
-..--.||+.+.+.|+||
T Consensus 111 --g~~i~~ile~~~~~l~~g 128 (187)
T COG2242 111 --GGNIEEILEAAWERLKPG 128 (187)
T ss_pred --CCCHHHHHHHHHHHcCcC
Confidence 255677899999998886
No 131
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=71.67 E-value=2.8 Score=31.25 Aligned_cols=43 Identities=14% Similarity=0.128 Sum_probs=37.0
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccC
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFF 71 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~ 71 (214)
||+.+++++..+.+.++.|...|++.... .+.|.+|+.++.+.
T Consensus 28 la~~l~vs~~svs~~l~~L~~~Gli~~~~---------~~~i~LT~~G~~~a 70 (142)
T PRK03902 28 IAEALSVHPSSVTKMVQKLDKDEYLIYEK---------YRGLVLTPKGKKIG 70 (142)
T ss_pred HHHHhCCChhHHHHHHHHHHHCCCEEEec---------CceEEECHHHHHHH
Confidence 89999999999999999999999998641 46799999887654
No 132
>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function.
Probab=71.59 E-value=2.5 Score=29.33 Aligned_cols=28 Identities=14% Similarity=0.067 Sum_probs=27.0
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
+|..++++...+.++++-|..+|++++.
T Consensus 27 ia~~l~~~~~~v~~~l~~Le~~GLler~ 54 (92)
T PF10007_consen 27 IARRLKIPLEEVREALEKLEEMGLLERV 54 (92)
T ss_pred HHHHHCCCHHHHHHHHHHHHHCCCeEEe
Confidence 8889999999999999999999999997
No 133
>TIGR00080 pimt protein-L-isoaspartate(D-aspartate) O-methyltransferase. Among the prokaryotes, the gene name is pcm. Among eukaryotes, pimt.
Probab=70.03 E-value=15 Score=29.19 Aligned_cols=74 Identities=15% Similarity=0.044 Sum_probs=45.2
Q ss_pred CCceEEccC--CccHHHHHHhCCC---c------hHHHHhhcc-----CCCceEEecCCCCcccC-c--cceeeeehhcc
Q 042599 132 SVPHTKAQS--GMDAFAAAAKDAR---M------NNLFNQSMH-----NHTVVEHVSGHMFIEVP-N--GQALFMKWILS 192 (214)
Q Consensus 132 ~~~~~dvgG--G~~~~~~~~~~P~---l------~~v~~~~~~-----~~~rv~~~~gDff~~~P-~--~d~y~l~~ILH 192 (214)
...++|+|. |..+..+++..+. + +..++.+.. ..++++++.+|..+..+ . -|++++....+
T Consensus 78 ~~~VLDiG~GsG~~a~~la~~~~~~g~V~~vD~~~~~~~~A~~~~~~~g~~~v~~~~~d~~~~~~~~~~fD~Ii~~~~~~ 157 (215)
T TIGR00080 78 GMKVLEIGTGSGYQAAVLAEIVGRDGLVVSIERIPELAEKAERRLRKLGLDNVIVIVGDGTQGWEPLAPYDRIYVTAAGP 157 (215)
T ss_pred cCEEEEECCCccHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHCCCCCeEEEECCcccCCcccCCCCEEEEcCCcc
Confidence 356899996 5555555555432 2 233333321 23579999999987544 2 29888775443
Q ss_pred CCChHHHHHHHHHhHHhcCCC
Q 042599 193 DWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 193 dw~d~~~~~IL~~~~~Al~pg 213 (214)
.+++.+.+.|+||
T Consensus 158 --------~~~~~~~~~L~~g 170 (215)
T TIGR00080 158 --------KIPEALIDQLKEG 170 (215)
T ss_pred --------cccHHHHHhcCcC
Confidence 3455667778776
No 134
>TIGR02337 HpaR homoprotocatechuate degradation operon regulator, HpaR. This Helix-Turn-Helix transcriptional regulator is a member of the MarR family (pfam01047) and is found in association with operons for the degradation of 4-hydroxyphenylacetic acid via homoprotocatechuate.
Probab=69.80 E-value=3.6 Score=29.45 Aligned_cols=51 Identities=16% Similarity=0.133 Sum_probs=38.5
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccCCC
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFFPN 73 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~~~ 73 (214)
||+.++++...+.|+++-|...|+++..... .| ...-.+.+|+.++.+...
T Consensus 48 la~~~~~~~~tvs~~l~~Le~~GlI~r~~~~--~D-~R~~~v~LT~~G~~~~~~ 98 (118)
T TIGR02337 48 LANQACILRPSLTGILARLERDGLVTRLKAS--ND-QRRVYISLTPKGQALYAS 98 (118)
T ss_pred HHHHhCCCchhHHHHHHHHHHCCCEEeccCC--CC-CCeeEEEECHhHHHHHHH
Confidence 8899999999999999999999999986321 10 012368888888776543
No 135
>TIGR02702 SufR_cyano iron-sulfur cluster biosynthesis transcriptional regulator SufR. All members of this cyanobacterial protein family are the transcriptional regulator SufR and regulate the SUF system, which makes possible iron-sulfur cluster biosynthesis despite exposure to oxygen. In all cases, the sufR gene is encoded near SUF system genes but in the opposite direction. This DNA-binding protein belongs to the the DeoR family of helix-loop-helix proteins. All members also have a probable metal-binding motif C-X(12)-C-X(13)-C-X(14)-C near the C-terminus.
Probab=69.57 E-value=4.5 Score=32.11 Aligned_cols=52 Identities=23% Similarity=0.304 Sum_probs=38.1
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccCC
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFFP 72 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~~ 72 (214)
||+.+|+++..+.+.|+.|...|+++...... ..|-..-.|.+|+.+..+..
T Consensus 21 LA~~lgis~~tV~~~L~~Le~~GlV~r~~~~~-~~gRp~~~y~LT~~G~~~~~ 72 (203)
T TIGR02702 21 LAEALAISPQAVRRHLKDLETEGLIEYEAVVQ-GMGRPQYHYQLSRQGREQFP 72 (203)
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCCeEEeeccc-CCCCCceEEEECcchhhhcc
Confidence 89999999999999999999999998752100 11111234788988876553
No 136
>PF12840 HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_A 1Y0U_B 2QUF_B 2QLZ_C 2OQG_B 2ZKZ_C 3PQK_A 3PQJ_D 3F6O_B ....
Probab=69.07 E-value=2.1 Score=26.97 Aligned_cols=44 Identities=11% Similarity=0.198 Sum_probs=35.5
Q ss_pred hHHHHHHHHhCchhHH----------cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 4 PMTMKTAIQLGVLEIM----------LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 4 ~~~L~~a~~lgifd~L----------LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
..+|.--.++.|...| ||+.+|+++..+.+=|+.|...|+++..
T Consensus 4 ~~aL~~p~R~~Il~~L~~~~~~t~~ela~~l~~~~~t~s~hL~~L~~aGli~~~ 57 (61)
T PF12840_consen 4 FKALSDPTRLRILRLLASNGPMTVSELAEELGISQSTVSYHLKKLEEAGLIEVE 57 (61)
T ss_dssp HHHHTSHHHHHHHHHHHHCSTBEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHhCCHHHHHHHHHHhcCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEEe
Confidence 3445555667777777 8899999999999999999999999876
No 137
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B ....
Probab=67.62 E-value=1.9 Score=26.81 Aligned_cols=29 Identities=10% Similarity=0.139 Sum_probs=26.3
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeec
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNL 48 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~ 48 (214)
||+.+++++..+.|+++.|...|+++...
T Consensus 27 la~~l~~~~~~vs~~v~~L~~~Glv~r~~ 55 (62)
T PF12802_consen 27 LAERLGISKSTVSRIVKRLEKKGLVERER 55 (62)
T ss_dssp HHHHHTS-HHHHHHHHHHHHHTTSEEEEE
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCCEEEeC
Confidence 88999999999999999999999999863
No 138
>PF05185 PRMT5: PRMT5 arginine-N-methyltransferase; InterPro: IPR007857 The human homologue of Saccharomyces cerevisiae Skb1 (Shk1 kinase-binding protein 1) is a protein methyltransferase []. These proteins seem to play a role in Jak signalling.; GO: 0008168 methyltransferase activity, 0005737 cytoplasm; PDB: 2Y1W_C 2Y1X_D 2V7E_B 2V74_H 3R0Q_G 3B3F_B 3B3J_A 3B3G_A 3UA3_A 3UA4_B ....
Probab=67.28 E-value=19 Score=32.47 Aligned_cols=112 Identities=13% Similarity=0.078 Sum_probs=56.2
Q ss_pred CcchhhhcchhhHhhHHhhhhhccHHHHHhcC-----CCceEEccC--CccHHHHHH---------------hCCCchHH
Q 042599 100 TQHSYLCMKDALLEGFINTLNRYYLKNALLEG-----SVPHTKAQS--GMDAFAAAA---------------KDARMNNL 157 (214)
Q Consensus 100 ~~~~~~~~~p~~~~~f~~~m~~~~~~~~~~~g-----~~~~~dvgG--G~~~~~~~~---------------~~P~l~~v 157 (214)
..|+.++.||..-+.+..++. ..+.+.+... ...+.|||. |-.+...++ ++|..-..
T Consensus 151 ~tYe~fE~D~vKY~~Ye~AI~-~al~D~~~~~~~~~~~~vVldVGAGrGpL~~~al~A~~~~~~a~~VyAVEkn~~A~~~ 229 (448)
T PF05185_consen 151 QTYEVFEKDPVKYDQYERAIE-EALKDRVRKNSYSSKDKVVLDVGAGRGPLSMFALQAGARAGGAVKVYAVEKNPNAVVT 229 (448)
T ss_dssp HHHHHHCC-HHHHHHHHHHHH-HHHHHHHTTS-SEETT-EEEEES-TTSHHHHHHHHTTHHHCCESEEEEEESSTHHHHH
T ss_pred ccHhhHhcCHHHHHHHHHHHH-HHHHhhhhhccccccceEEEEeCCCccHHHHHHHHHHHHhCCCeEEEEEcCCHhHHHH
Confidence 467788888877666666652 2344555443 245789996 443322221 23322111
Q ss_pred HHhh---ccCCCceEEecCCCCc-ccC-ccceeeeehhccCCCh-HHHHHHHHHhHHhcCCC
Q 042599 158 FNQS---MHNHTVVEHVSGHMFI-EVP-NGQALFMKWILSDWDD-EECLKILKNCCVQCNTG 213 (214)
Q Consensus 158 ~~~~---~~~~~rv~~~~gDff~-~~P-~~d~y~l~~ILHdw~d-~~~~~IL~~~~~Al~pg 213 (214)
.+.- -.-.++|+.+.+|+-+ ..| ++|+++ +-.|-.+.| |-+...|....+-|+||
T Consensus 230 l~~~v~~n~w~~~V~vi~~d~r~v~lpekvDIIV-SElLGsfg~nEl~pE~Lda~~rfLkp~ 290 (448)
T PF05185_consen 230 LQKRVNANGWGDKVTVIHGDMREVELPEKVDIIV-SELLGSFGDNELSPECLDAADRFLKPD 290 (448)
T ss_dssp HHHHHHHTTTTTTEEEEES-TTTSCHSS-EEEEE-E---BTTBTTTSHHHHHHHGGGGEEEE
T ss_pred HHHHHHhcCCCCeEEEEeCcccCCCCCCceeEEE-EeccCCccccccCHHHHHHHHhhcCCC
Confidence 1111 1124789999999997 667 589874 333333333 23334455555555543
No 139
>PRK13942 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=67.22 E-value=21 Score=28.43 Aligned_cols=41 Identities=20% Similarity=0.155 Sum_probs=28.8
Q ss_pred CCceEEecCCCCcccC-cc--ceeeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 165 HTVVEHVSGHMFIEVP-NG--QALFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 165 ~~rv~~~~gDff~~~P-~~--d~y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
..+|+++.+|.++..| .+ |++++....++.+ +.+.+.|+||
T Consensus 126 ~~~v~~~~gd~~~~~~~~~~fD~I~~~~~~~~~~--------~~l~~~Lkpg 169 (212)
T PRK13942 126 YDNVEVIVGDGTLGYEENAPYDRIYVTAAGPDIP--------KPLIEQLKDG 169 (212)
T ss_pred CCCeEEEECCcccCCCcCCCcCEEEECCCcccch--------HHHHHhhCCC
Confidence 3579999999987555 33 9998877665443 3455667776
No 140
>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif. FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.
Probab=66.76 E-value=3.5 Score=26.68 Aligned_cols=28 Identities=18% Similarity=0.259 Sum_probs=25.1
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||...++++..++-+|..|+..|.+++.
T Consensus 20 La~~~~~s~~~ve~mL~~l~~kG~I~~~ 47 (69)
T PF09012_consen 20 LAREFGISPEAVEAMLEQLIRKGYIRKV 47 (69)
T ss_dssp HHHHTT--HHHHHHHHHHHHCCTSCEEE
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCcEEEe
Confidence 8999999999999999999999999986
No 141
>PF04182 B-block_TFIIIC: B-block binding subunit of TFIIIC; InterPro: IPR007309 Yeast transcription factor IIIC (TFIIIC) is a multisubunit protein complex that interacts with two control elements of class III promoters called the A and B blocks. This family represents the subunit within TFIIIC involved in B-block binding []. Although defined as a yeast protein, it is also found in a number of other organisms.
Probab=66.51 E-value=3.1 Score=27.49 Aligned_cols=28 Identities=18% Similarity=0.070 Sum_probs=26.4
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
|++.+|.|++.+...++.|...|++...
T Consensus 24 L~~~~~~D~r~i~~~~k~L~~~gLI~k~ 51 (75)
T PF04182_consen 24 LSKLLGIDPRSIFYRLKKLEKKGLIVKQ 51 (75)
T ss_pred HHHHhCCCchHHHHHHHHHHHCCCEEEE
Confidence 7888999999999999999999999986
No 142
>TIGR02944 suf_reg_Xantho FeS assembly SUF system regulator, gammaproteobacterial. The SUF system is an oxygen-resistant iron-sulfur cluster assembly system found in both aerobes and facultative anaerobes. Its presence appears to be a marker of oxygen tolerance; strict anaerobes and microaerophiles tend to have different FeS cluster biosynthesis systems. Members of this protein family belong to the rrf2 family of transcriptional regulators and are found, typically, as the first gene of a SUF operon. It is found only in a subset of genomes that encode the SUF system, including the genus Xanthomonas. The conserved location suggests an autoregulatory role.
Probab=66.07 E-value=3.3 Score=30.26 Aligned_cols=28 Identities=11% Similarity=0.230 Sum_probs=26.5
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+.+++++..+.++|+.|...|++...
T Consensus 31 ia~~l~is~~~v~~~l~~L~~~Gli~~~ 58 (130)
T TIGR02944 31 IAEQTGLNAPTVSKILKQLSLAGIVTSK 58 (130)
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCcEEec
Confidence 8999999999999999999999999764
No 143
>PF01638 HxlR: HxlR-like helix-turn-helix; InterPro: IPR002577 The hxlR-type HTH domain is a domain of ~90-100 amino acids present in putative transcription regulators with a winged helix-turn-helix (wHTH) structure. The domain is named after Bacillus subtilis hxlR, a transcription activator of the hxlAB operon involved in the detoxification of formaldehyde []. The hxlR-type domain forms the core of putative transcription regulators and of hypothetical proteins occurring in eubacteria as well as in archaea. The sequence and structure of hxlR-type proteins show similarities with the marR-type wHTH []. The crystal structure of ytfH resembles the DNA-binding domains of winged helix proteins, containing a three helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-H2-B1-H3-H4-B2-B3-H5-H6. This topology corresponds with that of the marR-type DNA-binding domain, wherein helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. ; PDB: 2F2E_B 3DF8_A 1Z7U_B 1YYV_A 4A5M_D 4A5N_B 2FSW_A 2HZT_D.
Probab=65.81 E-value=7.3 Score=26.57 Aligned_cols=49 Identities=14% Similarity=0.236 Sum_probs=33.6
Q ss_pred cCCCC-CCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccC
Q 042599 20 LPKNN-KETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFF 71 (214)
Q Consensus 20 LA~~~-~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~ 71 (214)
|.+.+ |+++..|.+=|+.|...|++++....+ . ...-.|++|+.++.|.
T Consensus 24 l~~~l~~is~~~L~~~L~~L~~~GLv~r~~~~~-~--p~~v~Y~LT~~G~~l~ 73 (90)
T PF01638_consen 24 LQRRLPGISPKVLSQRLKELEEAGLVERRVYPE-V--PPRVEYSLTEKGKELL 73 (90)
T ss_dssp HHHHSTTS-HHHHHHHHHHHHHTTSEEEEEESS-S--SSEEEEEE-HHHHHHH
T ss_pred HHHhcchhHHHHHHHHHHHHHHcchhhcccccC-C--CCCCccCCCcCHHHHH
Confidence 44445 899999999999999999998863211 0 0023599999887664
No 144
>PF09821 AAA_assoc_C: C-terminal AAA-associated domain; InterPro: IPR018632 Members of this family are found in various prokaryotic ABC transporters, predominantly involved in nitrate, sulphonate and bicarbonate translocation.
Probab=65.79 E-value=4.7 Score=29.45 Aligned_cols=45 Identities=13% Similarity=0.063 Sum_probs=39.9
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccCCCC
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFFPNE 74 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~~~~ 74 (214)
||+.++.+.+-|--++.++..+|+++.. +|-..+|+.++.++..+
T Consensus 3 La~~l~~eiDdL~p~~eAaelLgf~~~~----------~Gdi~LT~~G~~f~~a~ 47 (120)
T PF09821_consen 3 LADELHLEIDDLLPIVEAAELLGFAEVE----------EGDIRLTPLGRRFAEAD 47 (120)
T ss_pred hHHHhCCcHHHHHHHHHHHHHcCCeeec----------CCcEEeccchHHHHHCC
Confidence 5778899999999999999999999985 68899999999988654
No 145
>PF02353 CMAS: Mycolic acid cyclopropane synthetase; InterPro: IPR003333 This entry represents mycolic acid cyclopropane synthases and related enzymes, including CmaA1, CmaA2 (cyclopropane mycolic acid synthase A1 and A2) and MmaA1-4 (methoxymycolic acid synthase A1-4). All are thought to be S-adenosyl-L-methionine (SAM) utilising methyltransferases []. Mycolic acid cyclopropane synthase or cyclopropane-fatty-acyl-phospholipid synthase (CFA synthase) 2.1.1.79 from EC catalyses the reaction: S-adenosyl-L-methionine + phospholipid olefinic fatty acid -> S-adenosyl-L-homocysteine + phospholipid cyclopropane fatty acid. The major mycolic acid produced by Mycobacterium tuberculosis contains two cis-cyclopropanes in the meromycolate chain. Cyclopropanation may contribute to the structural integrity of the cell wall complex [].; GO: 0008610 lipid biosynthetic process; PDB: 3HA5_A 2FK8_A 3HA7_A 3HA3_A 2FK7_A 1KPG_D 1KP9_B 1KPH_D 3VC2_E 3VC1_D ....
Probab=65.50 E-value=17 Score=30.36 Aligned_cols=81 Identities=10% Similarity=-0.022 Sum_probs=50.1
Q ss_pred CCceEEccC--CccHHHHHHhCC-Cc------hHHHHhh------ccCCCceEEecCCCCcccC-ccceeeeehhccCCC
Q 042599 132 SVPHTKAQS--GMDAFAAAAKDA-RM------NNLFNQS------MHNHTVVEHVSGHMFIEVP-NGQALFMKWILSDWD 195 (214)
Q Consensus 132 ~~~~~dvgG--G~~~~~~~~~~P-~l------~~v~~~~------~~~~~rv~~~~gDff~~~P-~~d~y~l~~ILHdw~ 195 (214)
+..++|+|. |..+..+++++. .. +.-...+ ....++|++.-.|+.+ +| +=|.++--..+....
T Consensus 63 G~~vLDiGcGwG~~~~~~a~~~g~~v~gitlS~~Q~~~a~~~~~~~gl~~~v~v~~~D~~~-~~~~fD~IvSi~~~Ehvg 141 (273)
T PF02353_consen 63 GDRVLDIGCGWGGLAIYAAERYGCHVTGITLSEEQAEYARERIREAGLEDRVEVRLQDYRD-LPGKFDRIVSIEMFEHVG 141 (273)
T ss_dssp T-EEEEES-TTSHHHHHHHHHH--EEEEEES-HHHHHHHHHHHHCSTSSSTEEEEES-GGG----S-SEEEEESEGGGTC
T ss_pred CCEEEEeCCCccHHHHHHHHHcCcEEEEEECCHHHHHHHHHHHHhcCCCCceEEEEeeccc-cCCCCCEEEEEechhhcC
Confidence 357999996 666677777753 11 1111111 1234689999999876 34 336555555555668
Q ss_pred hHHHHHHHHHhHHhcCCC
Q 042599 196 DEECLKILKNCCVQCNTG 213 (214)
Q Consensus 196 d~~~~~IL~~~~~Al~pg 213 (214)
.+.-...+++|.+.|+||
T Consensus 142 ~~~~~~~f~~~~~~Lkpg 159 (273)
T PF02353_consen 142 RKNYPAFFRKISRLLKPG 159 (273)
T ss_dssp GGGHHHHHHHHHHHSETT
T ss_pred hhHHHHHHHHHHHhcCCC
Confidence 888899999999999997
No 146
>PF05724 TPMT: Thiopurine S-methyltransferase (TPMT); InterPro: IPR008854 This family consists of thiopurine S-methyltransferase proteins from both eukaryotes and prokaryotes. Thiopurine S-methyltransferase (TPMT) is a cytosolic enzyme that catalyses S-methylation of aromatic and heterocyclic sulphydryl compounds, including anticancer and immunosuppressive thiopurines [].; GO: 0008119 thiopurine S-methyltransferase activity, 0008152 metabolic process, 0005737 cytoplasm; PDB: 1PJZ_A 2H11_A 2BZG_A 3LCC_A 3BGD_A 2GB4_A 3BGI_B.
Probab=65.43 E-value=6.2 Score=31.84 Aligned_cols=49 Identities=14% Similarity=0.200 Sum_probs=40.4
Q ss_pred CCceEEecCCCCcccC-c-c--ceeeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 165 HTVVEHVSGHMFIEVP-N-G--QALFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 165 ~~rv~~~~gDff~~~P-~-~--d~y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
.++|++..||||+--| . | |+++=+..|+-.+.+.-.+--+++.+.|+||
T Consensus 96 ~~~i~~~~gDfF~l~~~~~g~fD~iyDr~~l~Alpp~~R~~Ya~~l~~ll~p~ 148 (218)
T PF05724_consen 96 AGRITIYCGDFFELPPEDVGKFDLIYDRTFLCALPPEMRERYAQQLASLLKPG 148 (218)
T ss_dssp TSSEEEEES-TTTGGGSCHHSEEEEEECSSTTTS-GGGHHHHHHHHHHCEEEE
T ss_pred CCceEEEEcccccCChhhcCCceEEEEecccccCCHHHHHHHHHHHHHHhCCC
Confidence 4579999999998434 2 3 9999999999999999999999999999886
No 147
>PF01022 HTH_5: Bacterial regulatory protein, arsR family; InterPro: IPR001845 Bacterial transcription regulatory proteins that bind DNA via a helix-turn-helix (HTH) motif can be grouped into families on the basis of sequence similarities. One such group, termed arsR, includes several proteins that appear to dissociate from DNA in the presence of metal ions: arsR, which functions as a transcriptional repressor of an arsenic resistance operon; smtB from Synechococcus sp. (strain PCC 7942), which acts as a transcriptional repressor of the smtA gene that codes for a metallothionein; cadC, a protein required for cadmium-resistance; and hypothetical protein yqcJ from Bacillus subtilis. The HTH motif is thought to be located in the central part of these proteins []. The motif is characterised by a number of well-conserved residues: at its N-terminal extremity is a cysteine residue; a second Cys is found in arsR and cadC, but not in smtA; and at the C terminus lie one or two histidines. These residues may be involved in metal-binding (Zn in smtB; metal-oxyanions such as arsenite, antimonite and arsenate for arsR; and cadmium for cadC) []. It is believed that binding of a metal ion could induce a conformational change that would prevent the protein from binding DNA []. The crystal structure of the cyanobacterial smtB shows a fold of five alpha-helices (H) and a pair of antiparallel beta-strands (B) in the topology H1-H2-H3-H4-B1-B2-H5. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing as in other wHTH, such as the dtxR-type or the merR-type. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. Most arsR/smtB-like metalloregulators form homodimers []. The dimer interface is formed by helix 5 and an N-terminal part []. Two distinct metal-binding sites have been identified. The first site comprises cysteine thiolates located in the HTH in helix 3 and for some cases in the N terminus, called the alpha3(N) site []. The second metal-binding site is located in helix 5 (and C terminus) and is called the alpha5(C) site. The alpha3N site binds large thiophilic, toxic metals including Cd, Pb, and Bi, as in S. aureus cadC. ArsR lacks the N-terminal arm and its alpha3 site coordinates smaller thiophilic ions like As and Sb. The alpha5 site contains carboxylate and imidazole ligands and interacts preferentially with biologically required metal ions including Zn, Co, and Ni. ArsR-type metalloregulators contain one of these sites, both, or other potential metal-binding sites [, ]. Binding of metal ions to these sites leads to allosteric changes that can derepress the operator/promotor DNA. The metal-inducible operons contain one or two imperfect 12-2-12 inverted repeats, which can be recognised by multimeric arsR-type metalloregulators. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3CUO_A 1U2W_C 3F72_C 3F6V_A 3JTH_B 2P4W_B 1KU9_B 2LKP_B 1SMT_A 1R22_B ....
Probab=65.06 E-value=2.6 Score=25.01 Aligned_cols=26 Identities=12% Similarity=0.132 Sum_probs=23.6
Q ss_pred cCCCCCCChhhHHHHHHHHhcCccee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLT 45 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~ 45 (214)
||+.+|++...+.+=|+.|...|+++
T Consensus 21 l~~~l~~s~~~vs~hL~~L~~~glV~ 46 (47)
T PF01022_consen 21 LAEELGLSQSTVSHHLKKLREAGLVE 46 (47)
T ss_dssp HHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred HHHhccccchHHHHHHHHHHHCcCee
Confidence 88899999999999999999999986
No 148
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=64.96 E-value=20 Score=32.74 Aligned_cols=81 Identities=6% Similarity=-0.002 Sum_probs=48.6
Q ss_pred CceEEccCCc--cHHHHHHhCCCc--------hHHHHhhcc------CCCceEEecCCCCcccCc--cceeeee------
Q 042599 133 VPHTKAQSGM--DAFAAAAKDARM--------NNLFNQSMH------NHTVVEHVSGHMFIEVPN--GQALFMK------ 188 (214)
Q Consensus 133 ~~~~dvgGG~--~~~~~~~~~P~l--------~~v~~~~~~------~~~rv~~~~gDff~~~P~--~d~y~l~------ 188 (214)
..++|+|.|. .+..++...|.. +..++.+.. ..++|+++.+|+++.++. -|+++.-
T Consensus 140 ~~VLDlG~GsG~iai~la~~~p~~~v~avDis~~al~~A~~N~~~~~l~~~v~~~~~D~~~~~~~~~fDlIvsNPPYi~~ 219 (506)
T PRK01544 140 LNILELGTGSGCIAISLLCELPNANVIATDISLDAIEVAKSNAIKYEVTDRIQIIHSNWFENIEKQKFDFIVSNPPYISH 219 (506)
T ss_pred CEEEEccCchhHHHHHHHHHCCCCeEEEEECCHHHHHHHHHHHHHcCCccceeeeecchhhhCcCCCccEEEECCCCCCc
Confidence 3589999744 455566777753 223332221 135899999999987763 3777651
Q ss_pred --------hhccCCC------h----HHHHHHHHHhHHhcCCC
Q 042599 189 --------WILSDWD------D----EECLKILKNCCVQCNTG 213 (214)
Q Consensus 189 --------~ILHdw~------d----~~~~~IL~~~~~Al~pg 213 (214)
.++..++ . +.-.+|++++.+.|+||
T Consensus 220 ~~~~~l~~~v~~~EP~~AL~gg~dGl~~~~~il~~a~~~L~~g 262 (506)
T PRK01544 220 SEKSEMAIETINYEPSIALFAEEDGLQAYFIIAENAKQFLKPN 262 (506)
T ss_pred hhhhhcCchhhccCcHHHhcCCccHHHHHHHHHHHHHHhccCC
Confidence 1211111 1 23456888888888886
No 149
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=64.75 E-value=4.1 Score=24.79 Aligned_cols=28 Identities=11% Similarity=0.068 Sum_probs=26.2
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+..|++...+.+.|+.|...|++...
T Consensus 26 la~~~~vs~~tv~~~l~~L~~~g~i~~~ 53 (60)
T smart00345 26 LAAQLGVSRTTVREALSRLEAEGLVQRR 53 (60)
T ss_pred HHHHHCCCHHHHHHHHHHHHHCCCEEEe
Confidence 7889999999999999999999999875
No 150
>PRK13944 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=64.73 E-value=20 Score=28.33 Aligned_cols=73 Identities=18% Similarity=0.085 Sum_probs=43.4
Q ss_pred CceEEccC--CccHHHHHHhCC-C--c------hHHHHhhcc------CCCceEEecCCCCcccCc---cceeeeehhcc
Q 042599 133 VPHTKAQS--GMDAFAAAAKDA-R--M------NNLFNQSMH------NHTVVEHVSGHMFIEVPN---GQALFMKWILS 192 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P-~--l------~~v~~~~~~------~~~rv~~~~gDff~~~P~---~d~y~l~~ILH 192 (214)
..++|+|. |..+..+.+..+ . + +..++.+.. ...+++++.+|+.+..|. -|++++...++
T Consensus 74 ~~VLDiG~GsG~~~~~la~~~~~~g~V~~iD~~~~~~~~a~~~l~~~~~~~~v~~~~~d~~~~~~~~~~fD~Ii~~~~~~ 153 (205)
T PRK13944 74 MKILEVGTGSGYQAAVCAEAIERRGKVYTVEIVKELAIYAAQNIERLGYWGVVEVYHGDGKRGLEKHAPFDAIIVTAAAS 153 (205)
T ss_pred CEEEEECcCccHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHHcCCCCcEEEEECCcccCCccCCCccEEEEccCcc
Confidence 56899996 444444444332 1 1 223332221 124699999999876652 39999988887
Q ss_pred CCChHHHHHHHHHhHHhcCCC
Q 042599 193 DWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 193 dw~d~~~~~IL~~~~~Al~pg 213 (214)
..++ .+.+.|+||
T Consensus 154 ~~~~--------~l~~~L~~g 166 (205)
T PRK13944 154 TIPS--------ALVRQLKDG 166 (205)
T ss_pred hhhH--------HHHHhcCcC
Confidence 6553 445566665
No 151
>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]
Probab=64.30 E-value=3.9 Score=31.22 Aligned_cols=45 Identities=16% Similarity=0.117 Sum_probs=39.6
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccCCC
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFFPN 73 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~~~ 73 (214)
||+.+++.+..+...++-|...|+++..+ -+.+.+|+.++..+..
T Consensus 30 iA~~L~Vsp~sVt~ml~rL~~~GlV~~~~---------y~gi~LT~~G~~~a~~ 74 (154)
T COG1321 30 IAERLKVSPPSVTEMLKRLERLGLVEYEP---------YGGVTLTEKGREKAKE 74 (154)
T ss_pred HHHHhCCCcHHHHHHHHHHHHCCCeEEec---------CCCeEEChhhHHHHHH
Confidence 99999999999999999999999999862 6789999988766543
No 152
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=64.17 E-value=4.7 Score=30.65 Aligned_cols=40 Identities=10% Similarity=0.091 Sum_probs=33.2
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchh
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASV 66 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~ 66 (214)
||+..++++..|.+||..|...|+++-.. + ..|.|.++.-
T Consensus 30 IA~~~~is~~~L~kIl~~L~~aGlv~S~r--G-----~~GGy~La~~ 69 (153)
T PRK11920 30 IARAYGVSELFLFKILQPLVEAGLVETVR--G-----RNGGVRLGRP 69 (153)
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCCEEeec--C-----CCCCeeecCC
Confidence 99999999999999999999999998763 1 1567777553
No 153
>cd00090 HTH_ARSR Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.
Probab=63.32 E-value=4.7 Score=25.39 Aligned_cols=28 Identities=14% Similarity=0.176 Sum_probs=26.1
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
|++.++++...+.+.|+.|...|++...
T Consensus 26 i~~~~~i~~~~i~~~l~~L~~~g~i~~~ 53 (78)
T cd00090 26 LAERLGLSQSTVSRHLKKLEEAGLVESR 53 (78)
T ss_pred HHHHHCcCHhHHHHHHHHHHHCCCeEEE
Confidence 7888999999999999999999999875
No 154
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=63.27 E-value=4.4 Score=28.36 Aligned_cols=27 Identities=15% Similarity=0.186 Sum_probs=25.8
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTC 46 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~ 46 (214)
||+.+|+++..+.|.++.|...|++..
T Consensus 23 la~~l~~s~~tv~~~l~~L~~~g~i~~ 49 (108)
T smart00344 23 LAKKVGLSPSTVHNRVKRLEEEGVIKG 49 (108)
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCCeec
Confidence 899999999999999999999999984
No 155
>TIGR00027 mthyl_TIGR00027 methyltransferase, putative, TIGR00027 family. This model represents a set of probable methyltransferases, about 300 amino acids long, with essentially full length homology. Members share an N-terminal region described by Pfam model pfam02409. Included are a paralogous family of 12 proteins in Mycobacterium tuberculosis, plus close homologs in related species, a family of 8 in the archaeon Methanosarcina acetivorans, and small numbers of members in other species, including plants.
Probab=63.19 E-value=44 Score=27.65 Aligned_cols=89 Identities=13% Similarity=0.051 Sum_probs=60.3
Q ss_pred HHHHhcCCCceEEccCCccHHHHHHhCC--------CchHHHHhh---c-----cCCCceEEecCCCCccc---------
Q 042599 125 KNALLEGSVPHTKAQSGMDAFAAAAKDA--------RMNNLFNQS---M-----HNHTVVEHVSGHMFIEV--------- 179 (214)
Q Consensus 125 ~~~~~~g~~~~~dvgGG~~~~~~~~~~P--------~l~~v~~~~---~-----~~~~rv~~~~gDff~~~--------- 179 (214)
.+.+..|..++|.+|.|.....+.-.+| |+|++++.- . ....++.+++.|+.+..
T Consensus 75 ~~~~~~g~~qvV~LGaGlDTr~~Rl~~~~~~~~~EvD~P~v~~~K~~~l~~~~~~~~~~~~~v~~Dl~~~w~~~L~~~gf 154 (260)
T TIGR00027 75 LAAVAAGIRQVVILGAGLDTRAYRLPWPDGTRVFEVDQPAVLAFKEKVLAELGAEPPAHRRAVPVDLRQDWPAALAAAGF 154 (260)
T ss_pred HHHHhcCCcEEEEeCCccccHHHhcCCCCCCeEEECCChHHHHHHHHHHHHcCCCCCCceEEeccCchhhHHHHHHhCCC
Confidence 3445556677999998776554443444 235554321 1 12468999999997422
Q ss_pred -Cc-cceeeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 180 -PN-GQALFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 180 -P~-~d~y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
|. .-++++--|+.-.+.+++.++|+.+.+...||
T Consensus 155 d~~~ptl~i~EGvl~YL~~~~v~~ll~~i~~~~~~g 190 (260)
T TIGR00027 155 DPTAPTAWLWEGLLMYLTEEAVDALLAFIAELSAPG 190 (260)
T ss_pred CCCCCeeeeecchhhcCCHHHHHHHHHHHHHhCCCC
Confidence 11 24777888999999999999999999887676
No 156
>COG4301 Uncharacterized conserved protein [Function unknown]
Probab=62.90 E-value=8.1 Score=32.10 Aligned_cols=47 Identities=23% Similarity=0.374 Sum_probs=39.4
Q ss_pred ceEEecCCCCc---ccCc-c--ceeeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 167 VVEHVSGHMFI---EVPN-G--QALFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 167 rv~~~~gDff~---~~P~-~--d~y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
.|.-+.||+=. .+|+ + -.+|+..-|-|++.++|...|.+++.+|.||
T Consensus 134 ~v~~l~~~~~~~La~~~~~~~Rl~~flGStlGN~tp~e~~~Fl~~l~~a~~pG 186 (321)
T COG4301 134 EVNALCGDYELALAELPRGGRRLFVFLGSTLGNLTPGECAVFLTQLRGALRPG 186 (321)
T ss_pred eEeehhhhHHHHHhcccCCCeEEEEEecccccCCChHHHHHHHHHHHhcCCCc
Confidence 36677888864 4564 4 4678999999999999999999999999998
No 157
>PF03428 RP-C: Replication protein C N-terminal domain; InterPro: IPR005090 Proteins in this group have homology with the RepC protein of Agrobacterium Ri and Ti plasmids []. They may be involved in plasmid replication and stabilisation functions.
Probab=62.88 E-value=4.1 Score=31.87 Aligned_cols=28 Identities=18% Similarity=0.138 Sum_probs=26.3
Q ss_pred cCCCC-CCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNN-KETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~-~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
|++.+ |+++..|+|.++.|+..|++...
T Consensus 76 La~r~~G~s~~tlrR~l~~LveaGLI~rr 104 (177)
T PF03428_consen 76 LAERLNGMSERTLRRHLARLVEAGLIVRR 104 (177)
T ss_pred HHHHHcCCCHHHHHHHHHHHHHCCCeeec
Confidence 78888 99999999999999999999985
No 158
>PF08003 Methyltransf_9: Protein of unknown function (DUF1698); InterPro: IPR010017 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. This entry represents a set of bacterial AdoMet-dependent tRNA (mo5U34)-methyltransferases. These enzymes catalyse the conversion of 5-hydroxyuridine (ho5U) to 5-methoxyuridine (mo5U) at the wobble position (34) of tRNA []. The 5-methoxyuridine is subsequently converted to uridine-5-oxyacetic acid, a modified nucleoside that is apparently necessary for the efficient decoding of G-ending Pro, Ala, and Val codons in these organisms [].; GO: 0016300 tRNA (uracil) methyltransferase activity, 0002098 tRNA wobble uridine modification
Probab=61.45 E-value=27 Score=29.90 Aligned_cols=78 Identities=15% Similarity=0.127 Sum_probs=48.4
Q ss_pred CceEEccC--CccHHHHHHhCCCc--------hH-----HHHhhccCCCceEEecCCCCcccCc--c-ceeeeehhccCC
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM--------NN-----LFNQSMHNHTVVEHVSGHMFIEVPN--G-QALFMKWILSDW 194 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l--------~~-----v~~~~~~~~~rv~~~~gDff~~~P~--~-d~y~l~~ILHdw 194 (214)
..++|||. |..+|+.+++.|.. .. .+++......++..++ ...+.+|. . |++|.--||..-
T Consensus 117 k~VLDIGC~nGY~~frM~~~GA~~ViGiDP~~lf~~QF~~i~~~lg~~~~~~~lp-lgvE~Lp~~~~FDtVF~MGVLYHr 195 (315)
T PF08003_consen 117 KRVLDIGCNNGYYSFRMLGRGAKSVIGIDPSPLFYLQFEAIKHFLGQDPPVFELP-LGVEDLPNLGAFDTVFSMGVLYHR 195 (315)
T ss_pred CEEEEecCCCcHHHHHHhhcCCCEEEEECCChHHHHHHHHHHHHhCCCccEEEcC-cchhhccccCCcCEEEEeeehhcc
Confidence 56899997 88888888888764 11 1222222233344443 34466663 3 888888888664
Q ss_pred ChHHHHHHHHHhHHhcCCC
Q 042599 195 DDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 195 ~d~~~~~IL~~~~~Al~pg 213 (214)
.+. ...|+.++++|+||
T Consensus 196 r~P--l~~L~~Lk~~L~~g 212 (315)
T PF08003_consen 196 RSP--LDHLKQLKDSLRPG 212 (315)
T ss_pred CCH--HHHHHHHHHhhCCC
Confidence 433 45677777788776
No 159
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=61.08 E-value=6.5 Score=31.81 Aligned_cols=46 Identities=11% Similarity=0.212 Sum_probs=37.8
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccC
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFF 71 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~ 71 (214)
||+.++++...+.|.|+.|...|++++.... ....+.+|+.++.+.
T Consensus 27 LA~~L~iS~~Tvsr~Lk~LEe~GlI~R~~~~------r~~~v~LTekG~~ll 72 (217)
T PRK14165 27 FANHTGTSSKTAARILKQLEDEGYITRTIVP------RGQLITITEKGLDVL 72 (217)
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCCEEEEEcC------CceEEEECHHHHHHH
Confidence 8999999999999999999999999886321 146688888877654
No 160
>TIGR02147 Fsuc_second hypothetical protein, TIGR02147. This family consists of the 40 members of a paralogous protein family in the rumen anaerobe Fibrobacter succinogenes S85. Member proteins are about 270 residues long and appear to lack signal sequences and transmembrane helices. The only perfectly conserved residue is a glycine in an otherwise poorly conserved region, suggesting members are not enzymes. The family is not characterized.
Probab=60.31 E-value=10 Score=31.69 Aligned_cols=58 Identities=12% Similarity=0.086 Sum_probs=43.4
Q ss_pred hhhHHHHHHHHh--CchhHH-cCCCCC--CChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhcc
Q 042599 2 VLPMTMKTAIQL--GVLEIM-LPKNNK--ETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSR 68 (214)
Q Consensus 2 ~~~~~L~~a~~l--gifd~L-LA~~~~--~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~ 68 (214)
|.-.+++.++.+ |-.+.- ||++++ ++..-++.-|..|...|+++.+ + +|.|..|..+-
T Consensus 122 W~~~virel~~~~~~~~~~~~ia~~l~p~is~~ev~~sL~~L~~~glikk~-----~----~g~y~~t~~~l 184 (271)
T TIGR02147 122 WYNSVIRELLGVMPFADDPEELAKRCFPKISAEQVKESLDLLERLGLIKKN-----E----DGFYKQTDKAV 184 (271)
T ss_pred HHHHHHHHHhhcCCCCCCHHHHHHHhCCCCCHHHHHHHHHHHHHCCCeeEC-----C----CCcEEeeccee
Confidence 444566666665 222333 899887 7899999999999999999986 2 67898887753
No 161
>PF09445 Methyltransf_15: RNA cap guanine-N2 methyltransferase; InterPro: IPR019012 RNA cap guanine-N2 methyltransferases such as Schizosaccharomyces pombe (Fission yeast) trimethylguanosine synthase (Tgs1) and Giardia lamblia (Giardia intestinalis) Tgs2, catalyse the methylation step(s) for the conversion of the 7-monomethylguanosine (m(7)G) caps of snRNAs and snoRNAs to a 2,2,7-trimethylguanosine (m(2,2,7)G) cap structure [, , ]. Trimethylguanosine synthase is specific for guanine, and N7 methylation must precede N2 methylation. This enzyme is required for pre-mRNA splicing, pre-rRNA processing and small ribosomal subunit synthesis. As such, this enzyme plays a role in transcriptional regulation. ; GO: 0008168 methyltransferase activity, 0001510 RNA methylation, 0009452 RNA capping; PDB: 3EGI_B 3GDH_A.
Probab=60.12 E-value=5.8 Score=30.59 Aligned_cols=55 Identities=13% Similarity=0.146 Sum_probs=31.8
Q ss_pred ceEEccC--CccHHHHHHhCCCc------hHHHHhh----cc--CCCceEEecCCCCcccC-----c-cceeeee
Q 042599 134 PHTKAQS--GMDAFAAAAKDARM------NNLFNQS----MH--NHTVVEHVSGHMFIEVP-----N-GQALFMK 188 (214)
Q Consensus 134 ~~~dvgG--G~~~~~~~~~~P~l------~~v~~~~----~~--~~~rv~~~~gDff~~~P-----~-~d~y~l~ 188 (214)
.++|+.+ |-.++++++..... +..+.-+ .. ..++|+++.||+++..+ . .|++|++
T Consensus 2 ~vlD~fcG~GGNtIqFA~~~~~Viaidid~~~~~~a~hNa~vYGv~~~I~~i~gD~~~~~~~~~~~~~~D~vFlS 76 (163)
T PF09445_consen 2 TVLDAFCGVGGNTIQFARTFDRVIAIDIDPERLECAKHNAEVYGVADNIDFICGDFFELLKRLKSNKIFDVVFLS 76 (163)
T ss_dssp EEEETT-TTSHHHHHHHHTT-EEEEEES-HHHHHHHHHHHHHTT-GGGEEEEES-HHHHGGGB------SEEEE-
T ss_pred EEEEeccCcCHHHHHHHHhCCeEEEEECCHHHHHHHHHHHHHcCCCCcEEEEeCCHHHHHhhccccccccEEEEC
Confidence 3577754 77888888887643 2222222 11 25799999999997433 1 3788865
No 162
>PF01047 MarR: MarR family; InterPro: IPR000835 The MarR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 135 amino acids present in transcription regulators of the MarR/SlyA family, involved in the development of antibiotic resistance. This family of transcription regulators is named after Escherichia coli MarR, a repressor of genes which activate the multiple antibiotic resistance and oxidative stress regulons, and after slyA from Salmonella typhimurium and E. coli, a transcription regulator that is required for virulence and survival in the macrophage environment. Regulators with the MarR-type HTH domain are present in bacteria and archaea and control a variety of biological functions, including resistance to multiple antibiotics, household disinfectants, organic solvents, oxidative stress agents and regulation of the virulence factor synthesis in pathogens of humans and plants. Many of the MarR-like regulators respond to aromatic compounds [, , ]. The crystal structures of MarR, MexR and SlyA have been determined and show a winged HTH DNA-binding core flanked by helices involved in dimerisation. The DNA-binding domains are ascribed to the superfamily of winged helix proteins, containing a three (four)-helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-(H1')-H2-B1-H3-H4-B2-B3-H5-H6. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. The helices 1, 5 and 6 are involved in dimerisation, as most MarR-like transcription regulators form dimers [, ]. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1JGS_A 2NYX_D 2PEX_B 2PFB_A 3BPX_A 3BPV_A 2BV6_A 3BJA_A 3E6M_B 2ETH_A ....
Probab=59.98 E-value=3.4 Score=25.50 Aligned_cols=29 Identities=10% Similarity=0.158 Sum_probs=26.4
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeec
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNL 48 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~ 48 (214)
||+..+++...+.|+++-|...|+++...
T Consensus 23 la~~~~~~~~~~t~~i~~L~~~g~I~r~~ 51 (59)
T PF01047_consen 23 LAEKLGISRSTVTRIIKRLEKKGLIERER 51 (59)
T ss_dssp HHHHHTS-HHHHHHHHHHHHHTTSEEEEE
T ss_pred HHHHHCCChhHHHHHHHHHHHCCCEEecc
Confidence 99999999999999999999999999864
No 163
>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators. This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is
Probab=59.83 E-value=6.7 Score=24.32 Aligned_cols=28 Identities=14% Similarity=0.139 Sum_probs=25.7
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+..+++...+.+.|..|...|+++..
T Consensus 31 la~~~~is~~~v~~~l~~L~~~G~i~~~ 58 (66)
T cd07377 31 LAEELGVSRTTVREALRELEAEGLVERR 58 (66)
T ss_pred HHHHHCCCHHHHHHHHHHHHHCCCEEec
Confidence 7788999999999999999999999764
No 164
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=59.76 E-value=6.8 Score=28.86 Aligned_cols=29 Identities=14% Similarity=0.064 Sum_probs=27.4
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeec
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNL 48 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~ 48 (214)
||+.++.+...+.|-|+-|...|++.+.+
T Consensus 48 lae~lnr~rStv~rsl~~L~~~GlV~Rek 76 (126)
T COG3355 48 LAEILNRSRSTVYRSLQNLLEAGLVEREK 76 (126)
T ss_pred HHHHHCccHHHHHHHHHHHHHcCCeeeee
Confidence 89999999999999999999999999874
No 165
>PF08220 HTH_DeoR: DeoR-like helix-turn-helix domain; InterPro: IPR001034 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism. This family of prokaryotic regulators is named after the Escherichia coli protein DeoR, a repressor of the deo operon, which encodes nucleotide and deoxyribonucleotide catabolic enzymes. DeoR also negatively regulates the expression of nupG and tsx, a nucleoside-specific transport protein and a channel-forming protein, respectively. DeoR-like transcription repressors occur in diverse bacteria as regulators of sugar and nucleoside metabolic systems. The effector molecules for deoR-like regulators are generally phosphorylated intermediates of the relevant metabolic pathway. The DNA-binding deoR-type HTH domain occurs usually in the N-terminal part. The C-terminal part can contain an effector-binding domain and/or an oligomerisation domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular
Probab=59.16 E-value=8.7 Score=23.86 Aligned_cols=28 Identities=14% Similarity=0.188 Sum_probs=26.9
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+..|+++..++|=|..|...|++.+.
T Consensus 20 la~~~~VS~~TiRRDl~~L~~~g~i~r~ 47 (57)
T PF08220_consen 20 LAEEFGVSEMTIRRDLNKLEKQGLIKRT 47 (57)
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCCEEEE
Confidence 8899999999999999999999999986
No 166
>PRK11050 manganese transport regulator MntR; Provisional
Probab=59.13 E-value=5.5 Score=30.15 Aligned_cols=43 Identities=14% Similarity=0.053 Sum_probs=36.2
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccC
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFF 71 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~ 71 (214)
||+.++++...+.+.++.|...|++.... ...+.+|+.+..+.
T Consensus 57 LA~~l~is~stVsr~l~~Le~~GlI~r~~---------~~~v~LT~~G~~l~ 99 (152)
T PRK11050 57 IAARLGVSQPTVAKMLKRLARDGLVEMRP---------YRGVFLTPEGEKLA 99 (152)
T ss_pred HHHHHCCCHHHHHHHHHHHHHCCCEEEec---------CCceEECchHHHHH
Confidence 89999999999999999999999998751 35678888776654
No 167
>PF13730 HTH_36: Helix-turn-helix domain
Probab=58.92 E-value=4 Score=24.82 Aligned_cols=25 Identities=16% Similarity=0.242 Sum_probs=23.3
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcce
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFL 44 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~ 44 (214)
||+.+|+..+.+.|.++.|+..|++
T Consensus 31 la~~~g~s~~Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 31 LAKDLGVSRRTVQRAIKELEEKGLI 55 (55)
T ss_pred HHHHHCcCHHHHHHHHHHHHHCcCC
Confidence 8899999999999999999999874
No 168
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=58.56 E-value=4.9 Score=25.91 Aligned_cols=35 Identities=11% Similarity=0.164 Sum_probs=28.1
Q ss_pred hCchhHH--cCCCCCCC-hhhHHHHHHHHhcCcceeee
Q 042599 13 LGVLEIM--LPKNNKET-PIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 13 lgifd~L--LA~~~~~~-~~~l~rlLr~L~~~gl~~~~ 47 (214)
-|.+-.+ ||+.+|+. +..+.+.|+.|...|+++..
T Consensus 22 ~G~~Pt~rEIa~~~g~~S~~tv~~~L~~Le~kG~I~r~ 59 (65)
T PF01726_consen 22 NGYPPTVREIAEALGLKSTSTVQRHLKALERKGYIRRD 59 (65)
T ss_dssp HSS---HHHHHHHHTSSSHHHHHHHHHHHHHTTSEEEG
T ss_pred cCCCCCHHHHHHHhCCCChHHHHHHHHHHHHCcCccCC
Confidence 3444444 89999986 99999999999999999986
No 169
>PRK00312 pcm protein-L-isoaspartate O-methyltransferase; Reviewed
Probab=58.20 E-value=39 Score=26.60 Aligned_cols=40 Identities=13% Similarity=0.106 Sum_probs=28.6
Q ss_pred CceEEecCCCCcccCc-c--ceeeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 166 TVVEHVSGHMFIEVPN-G--QALFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 166 ~rv~~~~gDff~~~P~-~--d~y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
+.++++.+|+++..|. + |++++...+++. .+.+.+.|+||
T Consensus 126 ~~v~~~~~d~~~~~~~~~~fD~I~~~~~~~~~--------~~~l~~~L~~g 168 (212)
T PRK00312 126 HNVSVRHGDGWKGWPAYAPFDRILVTAAAPEI--------PRALLEQLKEG 168 (212)
T ss_pred CceEEEECCcccCCCcCCCcCEEEEccCchhh--------hHHHHHhcCCC
Confidence 4699999999876553 3 999887765544 44566777776
No 170
>PRK00377 cbiT cobalt-precorrin-6Y C(15)-methyltransferase; Provisional
Probab=58.15 E-value=32 Score=26.89 Aligned_cols=76 Identities=11% Similarity=0.013 Sum_probs=46.5
Q ss_pred CceEEccC--CccHHHHHHh-CCCc--------hHHHHhhc----c-C-CCceEEecCCCCcccC----ccceeeeehhc
Q 042599 133 VPHTKAQS--GMDAFAAAAK-DARM--------NNLFNQSM----H-N-HTVVEHVSGHMFIEVP----NGQALFMKWIL 191 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~-~P~l--------~~v~~~~~----~-~-~~rv~~~~gDff~~~P----~~d~y~l~~IL 191 (214)
..++|+|. |..+.+++.. .|.. +..++.+. . . .++++++.+|+.+-.| +.|++++.
T Consensus 42 ~~vlDlG~GtG~~s~~~a~~~~~~~~v~avD~~~~~~~~a~~n~~~~g~~~~v~~~~~d~~~~l~~~~~~~D~V~~~--- 118 (198)
T PRK00377 42 DMILDIGCGTGSVTVEASLLVGETGKVYAVDKDEKAINLTRRNAEKFGVLNNIVLIKGEAPEILFTINEKFDRIFIG--- 118 (198)
T ss_pred CEEEEeCCcCCHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHhCCCCCeEEEEechhhhHhhcCCCCCEEEEC---
Confidence 56899996 5444455443 2321 22222221 1 1 3578999999875322 24888773
Q ss_pred cCCChHHHHHHHHHhHHhcCCC
Q 042599 192 SDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 192 Hdw~d~~~~~IL~~~~~Al~pg 213 (214)
.+.++...+|+.+.+.|+||
T Consensus 119 --~~~~~~~~~l~~~~~~Lkpg 138 (198)
T PRK00377 119 --GGSEKLKEIISASWEIIKKG 138 (198)
T ss_pred --CCcccHHHHHHHHHHHcCCC
Confidence 23456678999999999986
No 171
>COG1733 Predicted transcriptional regulators [Transcription]
Probab=57.98 E-value=25 Score=25.57 Aligned_cols=49 Identities=18% Similarity=0.224 Sum_probs=34.4
Q ss_pred cCCCC-CCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccC
Q 042599 20 LPKNN-KETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFF 71 (214)
Q Consensus 20 LA~~~-~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~ 71 (214)
|-..+ |+++.-|.+=||.|...|++.+..-.... ..-.|++|+.++.|.
T Consensus 42 L~r~i~~Is~k~Ls~~Lk~Le~~Glv~R~~~~~~P---prveY~LT~~G~~L~ 91 (120)
T COG1733 42 LRRSIGGISPKMLSRRLKELEEDGLVERVVYPEEP---PRVEYRLTEKGRDLL 91 (120)
T ss_pred HHHHccccCHHHHHHHHHHHHHCCCEEeeecCCCC---ceeEEEEhhhHHHHH
Confidence 33344 49999999999999999999986321100 124588888877654
No 172
>PF03444 HrcA_DNA-bdg: Winged helix-turn-helix transcription repressor, HrcA DNA-binding; InterPro: IPR005104 Prokaryotic cells have a defence mechanism against a sudden heat-shock stress. Commonly, they induce a set of proteins that protect cellular proteins from being denatured by heat. Among such proteins are the GroE and DnaK chaperones whose transcription is regulated by a heat-shock repressor protein HrcA. HrcA is a winged helix-turn-helix repressor that negatively regulates the transcription of dnaK and groE operons by binding the upstream CIRCE (controlling inverted repeat of chaperone expression) element. In Bacillus subtilis this element is a perfect 9 base pair inverted repeat separated by a 9 base pair spacer. The crystal structure of a heat-inducible transcriptional repressor, HrcA, from Thermotoga maritima has been reported at 2.2A resolution. HrcA is composed of three domains: an N-terminal winged helix-turn-helix domain (WHTH), a GAF-like domain, and an inserted dimerizing domain (IDD). The IDD shows a unique structural fold with an anti-parallel beta-sheet composed of three beta-strands sided by four alpha-helices. HrcA crystallises as a dimer, which is formed through hydrophobic contact between the IDDs and a limited contact that involves conserved residues between the GAF-like domains []. The structural studies suggest that the inactive form of HrcA is the dimer and this is converted to its DNA-binding form by interaction with GroEL, which binds to a conserved C-terminal sequence region [, ]. Comparison of the HrcA-CIRCE complexes from B. subtilis and Bacillus thermoglucosidasius (Geobacillus thermoglucosidasius), which grow at vastly different ranges of temperature shows that the thermostability profiles were consistent with the difference in the growth temperatures suggesting that HrcA can function as a thermosensor to detect temperature changes in cells []. Any increase in temperature causes the dissociation of the HrcA from the CIRCE complex with the concomitant activation of transcription of the groE and dnaK operons. This domain represents the winged helix-turn-helix DNA-binding domain which is located close to the N terminus of HrcA. This domain is also found at the N terminus of a set of uncharacterised proteins that have two C-terminal CBS domains. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent
Probab=57.93 E-value=5.1 Score=26.90 Aligned_cols=27 Identities=7% Similarity=0.207 Sum_probs=25.5
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTC 46 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~ 46 (214)
||+.++.++..++-.|..|..+|+++.
T Consensus 29 ia~~l~~s~aTIRN~M~~Le~lGlve~ 55 (78)
T PF03444_consen 29 IAEELGRSPATIRNEMADLEELGLVES 55 (78)
T ss_pred HHHHHCCChHHHHHHHHHHHHCCCccC
Confidence 888899999999999999999999985
No 173
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=57.78 E-value=7.7 Score=23.57 Aligned_cols=28 Identities=11% Similarity=0.083 Sum_probs=25.7
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
|++.++++...+.+.|+.|...|++...
T Consensus 16 i~~~l~is~~~v~~~l~~L~~~g~i~~~ 43 (66)
T smart00418 16 LAEILGLSQSTVSHHLKKLREAGLVESR 43 (66)
T ss_pred HHHHHCCCHHHHHHHHHHHHHCCCeeee
Confidence 7788899999999999999999999865
No 174
>PF07381 DUF1495: Winged helix DNA-binding domain (DUF1495); InterPro: IPR010863 This family consists of several hypothetical archaeal proteins of around 110 residues in length. The function of this family is unknown, although one sequence (Q8U3W1 from SWISSPROT) is described as a putative HTH transcription regulator.
Probab=57.05 E-value=11 Score=26.09 Aligned_cols=56 Identities=18% Similarity=0.240 Sum_probs=40.0
Q ss_pred HHHHhCchhHH------------cCCCCCCChhhHHHHHH----------HHhcCcce-eeecccccCCCccccceecch
Q 042599 9 TAIQLGVLEIM------------LPKNNKETPIILDRMLR----------LLASYSFL-TCNLATNIKDGSAQRLYGLAS 65 (214)
Q Consensus 9 ~a~~lgifd~L------------LA~~~~~~~~~l~rlLr----------~L~~~gl~-~~~~~~~~~~g~~~~~y~~t~ 65 (214)
.=++..|+..| ||..+++++..+.--|+ -|+.+|++ .+.. ..| ...|++|+
T Consensus 8 S~~R~~vl~~L~~~yp~~~~~~eIar~v~~~~snV~GaL~G~g~rY~~e~SLv~lGLV~~~~~----~~g--~k~Y~lT~ 81 (90)
T PF07381_consen 8 SKVRKKVLEYLCSIYPEPAYPSEIARSVGSDYSNVLGALRGDGKRYNKEDSLVGLGLVEEEEE----KGG--FKYYRLTE 81 (90)
T ss_pred HHHHHHHHHHHHHcCCCcCCHHHHHHHHCCCHHHHHHHHhcCCCCcCcchhHHHcCCeeEeee----cCC--eeEEEeCh
Confidence 44556666666 88889999999888885 58999999 4331 111 45899998
Q ss_pred hcccc
Q 042599 66 VSRYF 70 (214)
Q Consensus 66 ~s~~l 70 (214)
-++.+
T Consensus 82 ~G~~~ 86 (90)
T PF07381_consen 82 KGKRI 86 (90)
T ss_pred hhhhH
Confidence 77654
No 175
>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional
Probab=56.76 E-value=7.7 Score=28.18 Aligned_cols=43 Identities=19% Similarity=0.270 Sum_probs=35.2
Q ss_pred HHHHHHHHhCchhHH----------cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 5 MTMKTAIQLGVLEIM----------LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 5 ~~L~~a~~lgifd~L----------LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
.+|.--.++.|+..| |++.+++.+..+.+=|+.|...|+++..
T Consensus 11 kaLadptRl~IL~~L~~~~~~~v~ela~~l~lsqstvS~HL~~L~~AGLV~~~ 63 (117)
T PRK10141 11 KILSDETRLGIVLLLRESGELCVCDLCTALDQSQPKISRHLALLRESGLLLDR 63 (117)
T ss_pred HHhCCHHHHHHHHHHHHcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCceEEE
Confidence 344445566677766 8888999999999999999999999876
No 176
>PF02002 TFIIE_alpha: TFIIE alpha subunit; InterPro: IPR024550 The general transcription factor TFIIE has an essential role in eukaryotic transcription initiation, together with RNA polymerase II and other general factors. Human TFIIE consists of two subunits, TFIIE-alpha and TFIIE-beta, and joins the preinitiation complex after RNA polymerase II and TFIIF []. This entry represents a helix-turn-helix (HTH) domain found in eukaryotic TFIIE-alpha []. It is also found in proteins from archaebacteria that are presumed to be TFIIE-alpha subunits [], the transcriptional regulator SarR, and also DNA-directed RNA polymerase III subunit Rpc3.; PDB: 1VD4_A 1Q1H_A.
Probab=55.62 E-value=6.2 Score=27.72 Aligned_cols=28 Identities=18% Similarity=0.190 Sum_probs=23.5
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+.+|+++.-++++|..|...|++...
T Consensus 33 la~~~~l~~~~vRkiL~~L~~~~lv~~~ 60 (105)
T PF02002_consen 33 LAKKLGLKPKEVRKILYKLYEDGLVSYR 60 (105)
T ss_dssp HHHTT-S-HHHHHHHHHHHHHHSS-EEE
T ss_pred HHHHhCCCHHHHHHHHHHHHHCCCeEEE
Confidence 9999999999999999999999999764
No 177
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=55.43 E-value=8.1 Score=28.67 Aligned_cols=49 Identities=20% Similarity=0.093 Sum_probs=36.2
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccC
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFF 71 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~ 71 (214)
||+.+++++..+.|++.-|...|++++.... .| ...-...+|+.++.+.
T Consensus 60 La~~l~i~~~tvsr~l~~Le~~GlI~R~~~~--~D-rR~~~l~LT~~G~~~~ 108 (144)
T PRK11512 60 LKKVLSVDLGALTRMLDRLVCKGWVERLPNP--ND-KRGVLVKLTTSGAAIC 108 (144)
T ss_pred HHHHHCCCHHHHHHHHHHHHHCCCEEeccCc--cc-CCeeEeEEChhHHHHH
Confidence 8999999999999999999999999986321 10 0122456777776654
No 178
>TIGR01884 cas_HTH CRISPR locus-related DNA-binding protein. Most but not all examples of this family are associated with CRISPR loci, a combination of DNA repeats and characteristic proteins encoded near the repeat cluster. The C-terminal region of this protein is homologous to DNA-binding helix-turn-helix domains with predicted transcriptional regulatory activity.
Probab=55.31 E-value=8.6 Score=30.46 Aligned_cols=40 Identities=18% Similarity=0.226 Sum_probs=33.2
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchh
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASV 66 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~ 66 (214)
||+.+++++..+.|.|..|...|++++... ....|.+|+.
T Consensus 163 ia~~l~is~stv~r~L~~Le~~GlI~r~~~-------r~~~~~lT~~ 202 (203)
T TIGR01884 163 IAKKLGKSLSTISRHLRELEKKGLVEQKGR-------KGKRYSLTKL 202 (203)
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCCEEEEcC-------CccEEEeCCC
Confidence 888999999999999999999999998621 1456777764
No 179
>PF11899 DUF3419: Protein of unknown function (DUF3419); InterPro: IPR021829 This family of proteins are functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 398 to 802 amino acids in length.
Probab=55.00 E-value=23 Score=31.21 Aligned_cols=59 Identities=12% Similarity=0.079 Sum_probs=48.0
Q ss_pred HHHHhhccCCCceEEecCCCCc---ccCcc--ceeeeehhccCCChHHHHHHHHHhHHhcCCCC
Q 042599 156 NLFNQSMHNHTVVEHVSGHMFI---EVPNG--QALFMKWILSDWDDEECLKILKNCCVQCNTGI 214 (214)
Q Consensus 156 ~v~~~~~~~~~rv~~~~gDff~---~~P~~--d~y~l~~ILHdw~d~~~~~IL~~~~~Al~pg~ 214 (214)
+.|+......+||+.+.+++-+ ..|.+ |.|.|.-+.-=.++++..++++.+.++++||-
T Consensus 265 e~f~~lr~~~drv~i~t~si~~~L~~~~~~s~~~~vL~D~~Dwm~~~~~~~~~~~l~~~~~pga 328 (380)
T PF11899_consen 265 ENFEALRARLDRVRIHTDSIEEVLRRLPPGSFDRFVLSDHMDWMDPEQLNEEWQELARTARPGA 328 (380)
T ss_pred hHHHHHhcCCCeEEEEeccHHHHHHhCCCCCeeEEEecchhhhCCHHHHHHHHHHHHHHhCCCC
Confidence 4565555566899999998775 56654 99999999866789999999999999999983
No 180
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=54.33 E-value=13 Score=29.96 Aligned_cols=28 Identities=21% Similarity=0.249 Sum_probs=23.5
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+++|++--..+|-|.+|++.|+++..
T Consensus 179 la~~~giSRvTaRRYLeyl~~~~~l~a~ 206 (224)
T COG4565 179 LAQALGISRVTARRYLEYLVSNGILEAE 206 (224)
T ss_pred HHHHhCccHHHHHHHHHHHHhcCeeeEE
Confidence 7788888888888888888888888764
No 181
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=53.66 E-value=17 Score=21.18 Aligned_cols=28 Identities=21% Similarity=0.154 Sum_probs=26.3
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
|++.+++++..+.+.|..|...|++...
T Consensus 20 l~~~l~~s~~tv~~~l~~L~~~g~i~~~ 47 (53)
T smart00420 20 LAELLGVSEMTIRRDLNKLEEQGLLTRV 47 (53)
T ss_pred HHHHHCCCHHHHHHHHHHHHHCCCEEEe
Confidence 8888999999999999999999999875
No 182
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=53.17 E-value=7.8 Score=24.78 Aligned_cols=28 Identities=7% Similarity=-0.111 Sum_probs=25.6
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
+|+++|++....+++|..|...|.++..
T Consensus 21 iA~~~gls~~~aR~yL~~Le~eG~V~~~ 48 (62)
T PF04703_consen 21 IADALGLSIYQARYYLEKLEKEGKVERS 48 (62)
T ss_dssp HHHHHTS-HHHHHHHHHHHHHCTSEEEE
T ss_pred HHHHhCCCHHHHHHHHHHHHHCCCEEEe
Confidence 8899999999999999999999999876
No 183
>PF02390 Methyltransf_4: Putative methyltransferase ; InterPro: IPR003358 This entry represents tRNA (guanine-N-7) methyltransferase (2.1.1.33 from EC), which catalyses the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. Capping of the pre-mRNA 5' end by addition a monomethylated guanosine cap (m(7)G) is an essential and the earliest modification in the biogenesis of mRNA []. The reaction is catalysed by three enzymes: triphosphatase, guanylyltransferase, and tRNA (guanine-N-7) methyltransferase [, ].; GO: 0008176 tRNA (guanine-N7-)-methyltransferase activity, 0006400 tRNA modification; PDB: 3DXZ_A 3DXY_A 3DXX_A 3CKK_A 3P2I_B 3P2K_D 3P2E_A 3MTE_B 3PB3_B 1YZH_B ....
Probab=53.03 E-value=38 Score=26.68 Aligned_cols=54 Identities=9% Similarity=0.070 Sum_probs=34.7
Q ss_pred HHHHHhcCCCceEEcc-C-CccHHHHHHhCCCch--------HHHHhhc-----cCCCceEEecCCCCc
Q 042599 124 LKNALLEGSVPHTKAQ-S-GMDAFAAAAKDARMN--------NLFNQSM-----HNHTVVEHVSGHMFI 177 (214)
Q Consensus 124 ~~~~~~~g~~~~~dvg-G-G~~~~~~~~~~P~l~--------~v~~~~~-----~~~~rv~~~~gDff~ 177 (214)
+.+......+..+|+| | |..+.+++.++|+.. ..+..+. ...+++.++.+|...
T Consensus 10 ~~~~f~~~~~l~lEIG~G~G~~l~~~A~~~Pd~n~iGiE~~~~~v~~a~~~~~~~~l~Nv~~~~~da~~ 78 (195)
T PF02390_consen 10 WQEIFGNDNPLILEIGCGKGEFLIELAKRNPDINFIGIEIRKKRVAKALRKAEKRGLKNVRFLRGDARE 78 (195)
T ss_dssp HHHHHTSCCEEEEEET-TTSHHHHHHHHHSTTSEEEEEES-HHHHHHHHHHHHHHTTSSEEEEES-CTT
T ss_pred HHHHcCCCCCeEEEecCCCCHHHHHHHHHCCCCCEEEEecchHHHHHHHHHHHhhcccceEEEEccHHH
Confidence 3444434445679999 5 888899999999852 2333322 246788888888664
No 184
>KOG1500 consensus Protein arginine N-methyltransferase CARM1 [Posttranslational modification, protein turnover, chaperones; Transcription]
Probab=52.40 E-value=48 Score=28.94 Aligned_cols=22 Identities=14% Similarity=0.289 Sum_probs=18.4
Q ss_pred CCceEEecCCCCc-ccC-ccceee
Q 042599 165 HTVVEHVSGHMFI-EVP-NGQALF 186 (214)
Q Consensus 165 ~~rv~~~~gDff~-~~P-~~d~y~ 186 (214)
.+||..++|-.=+ ++| ++|+++
T Consensus 225 ~~rItVI~GKiEdieLPEk~DviI 248 (517)
T KOG1500|consen 225 ADRITVIPGKIEDIELPEKVDVII 248 (517)
T ss_pred cceEEEccCccccccCchhccEEE
Confidence 5799999999886 799 478876
No 185
>TIGR00122 birA_repr_reg BirA biotin operon repressor domain. This model may recognize some other putative repressor proteins, such as DnrO of Streptomyces peucetius with scores below the noise cutoff but with significance shown by low E-value.
Probab=52.27 E-value=9.7 Score=24.39 Aligned_cols=28 Identities=7% Similarity=0.097 Sum_probs=25.5
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+.+|++...+.+-++.|...|+....
T Consensus 19 La~~l~vS~~tv~~~l~~L~~~g~~i~~ 46 (69)
T TIGR00122 19 LGEALGMSRTAVNKHIQTLREWGVDVLT 46 (69)
T ss_pred HHHHHCCCHHHHHHHHHHHHHCCCeEEe
Confidence 8999999999999999999999996654
No 186
>COG2227 UbiG 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Coenzyme metabolism]
Probab=51.48 E-value=24 Score=29.03 Aligned_cols=79 Identities=13% Similarity=0.107 Sum_probs=50.6
Q ss_pred CceEEccC--CccHHHHHHhCCCc------hHHHHhhcc--CCCc--eEEecCCCCcc-cCcc--ceeeeehhccCCChH
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM------NNLFNQSMH--NHTV--VEHVSGHMFIE-VPNG--QALFMKWILSDWDDE 197 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l------~~v~~~~~~--~~~r--v~~~~gDff~~-~P~~--d~y~l~~ILHdw~d~ 197 (214)
-.++|||. |..+..+++.--.. +..++-+.. ..+. |++......+- ...+ |+++.-.||+.-+|.
T Consensus 61 ~~vLDvGCGgG~Lse~mAr~Ga~VtgiD~se~~I~~Ak~ha~e~gv~i~y~~~~~edl~~~~~~FDvV~cmEVlEHv~dp 140 (243)
T COG2227 61 LRVLDVGCGGGILSEPLARLGASVTGIDASEKPIEVAKLHALESGVNIDYRQATVEDLASAGGQFDVVTCMEVLEHVPDP 140 (243)
T ss_pred CeEEEecCCccHhhHHHHHCCCeeEEecCChHHHHHHHHhhhhccccccchhhhHHHHHhcCCCccEEEEhhHHHccCCH
Confidence 56899985 65555666554332 223333321 1222 33555544432 2213 999999999999999
Q ss_pred HHHHHHHHhHHhcCCC
Q 042599 198 ECLKILKNCCVQCNTG 213 (214)
Q Consensus 198 ~~~~IL~~~~~Al~pg 213 (214)
+. ++++|.+-++||
T Consensus 141 ~~--~~~~c~~lvkP~ 154 (243)
T COG2227 141 ES--FLRACAKLVKPG 154 (243)
T ss_pred HH--HHHHHHHHcCCC
Confidence 88 999999999987
No 187
>TIGR00498 lexA SOS regulatory protein LexA. LexA acts as a homodimer to repress a number of genes involved in the response to DNA damage (SOS response), including itself and RecA. RecA, in the presence of single-stranded DNA, acts as a co-protease to activate a latent autolytic protease activity (EC 3.4.21.88) of LexA, where the active site Ser is part of LexA. The autolytic cleavage site is an Ala-Gly bond in LexA (at position 84-85 in E. coli LexA; this sequence is replaced by Gly-Gly in Synechocystis). The cleavage leads to derepression of the SOS regulon and eventually to DNA repair. LexA in Bacillus subtilis is called DinR. LexA is much less broadly distributed than RecA.
Probab=51.42 E-value=9 Score=30.12 Aligned_cols=28 Identities=11% Similarity=0.242 Sum_probs=26.6
Q ss_pred cCCCCCCC-hhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKET-PIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~-~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+.+|++ ...+.+.|+.|...|+++..
T Consensus 31 la~~~~~~s~~tv~~~l~~L~~~g~i~~~ 59 (199)
T TIGR00498 31 IARAVGLRSPSAAEEHLKALERKGYIERD 59 (199)
T ss_pred HHHHhCCCChHHHHHHHHHHHHCCCEecC
Confidence 89999998 99999999999999999985
No 188
>KOG2899 consensus Predicted methyltransferase [General function prediction only]
Probab=51.41 E-value=67 Score=26.77 Aligned_cols=46 Identities=17% Similarity=0.348 Sum_probs=33.2
Q ss_pred eEEecCCCCc-ccCccceee----eehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 168 VEHVSGHMFI-EVPNGQALF----MKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 168 v~~~~gDff~-~~P~~d~y~----l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
+.+..-||.+ .+|+=|+++ =+||==||.|+--++.++++.+-|.||
T Consensus 152 ~vle~~dfl~~~~~~fDiIlcLSiTkWIHLNwgD~GL~~ff~kis~ll~pg 202 (288)
T KOG2899|consen 152 YVLESDDFLDMIQPEFDIILCLSITKWIHLNWGDDGLRRFFRKISSLLHPG 202 (288)
T ss_pred EEEecchhhhhccccccEEEEEEeeeeEecccccHHHHHHHHHHHHhhCcC
Confidence 4444455664 456545444 356666899999999999999999887
No 189
>PRK09334 30S ribosomal protein S25e; Provisional
Probab=51.21 E-value=10 Score=26.03 Aligned_cols=28 Identities=18% Similarity=0.147 Sum_probs=26.5
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||++.++....-+++||.|...|++...
T Consensus 47 lserlkI~~SlAr~~Lr~L~~kG~Ik~V 74 (86)
T PRK09334 47 LASKYGIKISVAKKVLRELEKRGVLVLY 74 (86)
T ss_pred HHHHhcchHHHHHHHHHHHHHCCCEEEE
Confidence 8999999999999999999999999876
No 190
>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B ....
Probab=50.50 E-value=4.6 Score=22.22 Aligned_cols=25 Identities=16% Similarity=0.202 Sum_probs=20.5
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcce
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFL 44 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~ 44 (214)
||..+|+..+.+.|+|..|...|++
T Consensus 8 iA~~lG~t~ETVSR~l~~l~~~glI 32 (32)
T PF00325_consen 8 IADYLGLTRETVSRILKKLERQGLI 32 (32)
T ss_dssp HHHHHTS-HHHHHHHHHHHHHTTSE
T ss_pred HHHHhCCcHHHHHHHHHHHHHcCCC
Confidence 5667899999999999999988864
No 191
>TIGR03433 padR_acidobact transcriptional regulator, Acidobacterial, PadR-family. Members of this protein family are putative transcriptional regulators of the PadR family, as found in species of the Acidobacteria. This family of proteins has expanded greatly in this lineage, and where it regularly is found in the vicinity of a putative transporter protein
Probab=50.49 E-value=21 Score=24.80 Aligned_cols=52 Identities=12% Similarity=0.152 Sum_probs=36.1
Q ss_pred CCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccCCC
Q 042599 21 PKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFFPN 73 (214)
Q Consensus 21 A~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~~~ 73 (214)
.....+++..+.++|+-|...|+++....+. +.+-....|+.|+.++.+...
T Consensus 32 ~~~~~i~~gtlY~~L~rLe~~GlI~~~~~~~-~~~~~rk~y~iT~~Gr~~l~~ 83 (100)
T TIGR03433 32 EDVLQVEEGSLYPALHRLERRGWIAAEWGES-ENNRRAKFYRLTAAGRKQLAA 83 (100)
T ss_pred CCccccCCCcHHHHHHHHHHCCCeEEEeeec-CCCCCceEEEECHHHHHHHHH
Confidence 3456789999999999999999998731111 111113569999998876543
No 192
>PTZ00146 fibrillarin; Provisional
Probab=50.37 E-value=80 Score=26.79 Aligned_cols=76 Identities=8% Similarity=-0.011 Sum_probs=44.6
Q ss_pred CceEEccC--CccHHHHHHhCC-C-------c-hH----HHHhhccCCCceEEecCCCCccc----C--ccceeeeehhc
Q 042599 133 VPHTKAQS--GMDAFAAAAKDA-R-------M-NN----LFNQSMHNHTVVEHVSGHMFIEV----P--NGQALFMKWIL 191 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P-~-------l-~~----v~~~~~~~~~rv~~~~gDff~~~----P--~~d~y~l~~IL 191 (214)
..++|+|. |..+..++..-. + + +. .++.+. ..+.|.++.+|...+. + ..|++|+...
T Consensus 134 ~~VLDLGaG~G~~t~~lAdiVG~~G~VyAVD~s~r~~~dLl~~ak-~r~NI~~I~~Da~~p~~y~~~~~~vDvV~~Dva- 211 (293)
T PTZ00146 134 SKVLYLGAASGTTVSHVSDLVGPEGVVYAVEFSHRSGRDLTNMAK-KRPNIVPIIEDARYPQKYRMLVPMVDVIFADVA- 211 (293)
T ss_pred CEEEEeCCcCCHHHHHHHHHhCCCCEEEEEECcHHHHHHHHHHhh-hcCCCEEEECCccChhhhhcccCCCCEEEEeCC-
Confidence 46899996 554444444431 1 1 11 222222 2357899999987542 2 2488866652
Q ss_pred cCCChHHHHHHHHHhHHhcCCC
Q 042599 192 SDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 192 Hdw~d~~~~~IL~~~~~Al~pg 213 (214)
..++...++.++...|+||
T Consensus 212 ---~pdq~~il~~na~r~LKpG 230 (293)
T PTZ00146 212 ---QPDQARIVALNAQYFLKNG 230 (293)
T ss_pred ---CcchHHHHHHHHHHhccCC
Confidence 2335566667888899987
No 193
>PF00891 Methyltransf_2: O-methyltransferase; InterPro: IPR001077 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. This domain includes a range of O-methyltransferases some of which utilise S-adenosyl methionine as substrate []. In prokaryotes, the major role of DNA methylation is to protect host DNA against degradation by restriction enzymes. In eukaryotes, DNA methylation has been implicated in the control of several cellular processes, including differentiation, gene regulation, and embryonic development. O-methyltransferases have a common catalytic domain structure, which might be universal among S-adenosyl-L-methionine (AdoMet)-dependent methyltransferases []. Comparative analysis of the predicted amino acid sequences of a number of plant O-methyltransferase cDNA clones show that they share some 32-71% sequence identity, and can be grouped according to the different compounds they utilise as substrates [].; GO: 0008171 O-methyltransferase activity; PDB: 1FPQ_A 1FP1_D 3P9K_B 3P9I_D 3P9C_A 3I53_A 3I5U_A 3I64_A 3I58_A 1ZG3_A ....
Probab=49.41 E-value=9.1 Score=30.92 Aligned_cols=42 Identities=29% Similarity=0.445 Sum_probs=34.1
Q ss_pred ccHHHHHhcCCCceEEccCCccHHHHHHhCCCchHHHHhhccC
Q 042599 122 YYLKNALLEGSVPHTKAQSGMDAFAAAAKDARMNNLFNQSMHN 164 (214)
Q Consensus 122 ~~~~~~~~~g~~~~~dvgGG~~~~~~~~~~P~l~~v~~~~~~~ 164 (214)
..+.+++++|.++|..+. |...+++.+++|++...|+.+|..
T Consensus 41 ~~L~~~v~~g~~~~~~~~-g~~~~~~~~~~~~~~~~f~~~m~~ 82 (241)
T PF00891_consen 41 FRLTEAVRTGKPPFEKAF-GTPFFEYLEEDPELAKRFNAAMAE 82 (241)
T ss_dssp GGHHHHHHHSS-HHHHHH-SS-HHHHHHCSHHHHHHHHHHHHH
T ss_pred HHHHhhhccCCCHHHHhc-CCcHHHhhhhChHHHHHHHHHHHh
Confidence 568889999988888888 677999999999998888888764
No 194
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=49.09 E-value=12 Score=27.67 Aligned_cols=50 Identities=16% Similarity=0.120 Sum_probs=37.6
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccCC
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFFP 72 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~~ 72 (214)
||+.++++...+.|++.-|...|+++..... .| ...-.+.+|+.++.+..
T Consensus 52 La~~l~~~~~tvt~~v~~Le~~GlV~r~~~~--~D-rR~~~l~LT~~G~~~~~ 101 (144)
T PRK03573 52 LAKAIGIEQPSLVRTLDQLEEKGLISRQTCA--SD-RRAKRIKLTEKAEPLIS 101 (144)
T ss_pred HHHHhCCChhhHHHHHHHHHHCCCEeeecCC--CC-cCeeeeEEChHHHHHHH
Confidence 8999999999999999999999999986321 10 01234677888776654
No 195
>PF13545 HTH_Crp_2: Crp-like helix-turn-helix domain; PDB: 3LA2_A 3LA3_B 3LA7_A 3B02_A 3E97_A 2H6C_B 1OMI_A 2BGC_H 2BEO_A 2GAU_A ....
Probab=49.06 E-value=7.7 Score=25.11 Aligned_cols=28 Identities=11% Similarity=0.157 Sum_probs=26.5
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||..+|++...+.|+|+.|...|+++..
T Consensus 34 iA~~~g~sr~tv~r~l~~l~~~g~I~~~ 61 (76)
T PF13545_consen 34 IADMLGVSRETVSRILKRLKDEGIIEVK 61 (76)
T ss_dssp HHHHHTSCHHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHCCCHHHHHHHHHHHHHCCCEEEc
Confidence 8999999999999999999999999865
No 196
>PF05732 RepL: Firmicute plasmid replication protein (RepL); InterPro: IPR008813 This entry consists of proteins thought to be involved in plasmid replication. ; GO: 0006260 DNA replication, 0006276 plasmid maintenance
Probab=48.04 E-value=13 Score=28.66 Aligned_cols=39 Identities=8% Similarity=0.043 Sum_probs=34.6
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhc
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVS 67 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s 67 (214)
||+.+|++...+.|.+..|...+++.+.. .+.|..+|--
T Consensus 81 ia~~l~iS~~Tv~r~ik~L~e~~iI~k~~---------~G~Y~iNP~~ 119 (165)
T PF05732_consen 81 IAEKLGISKPTVSRAIKELEEKNIIKKIR---------NGAYMINPNF 119 (165)
T ss_pred HHHHhCCCHHHHHHHHHHHHhCCcEEEcc---------CCeEEECcHH
Confidence 88999999999999999999999999862 5789888864
No 197
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=47.36 E-value=10 Score=29.00 Aligned_cols=28 Identities=7% Similarity=-0.073 Sum_probs=26.2
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+.+|++...++|+|..|...|++...
T Consensus 34 La~~Lgi~~~~VRk~L~~L~e~~Lv~~~ 61 (158)
T TIGR00373 34 ISLELGIKLNEVRKALYALYDAGLADYK 61 (158)
T ss_pred HHHHHCCCHHHHHHHHHHHHHCCCceee
Confidence 9999999999999999999999999654
No 198
>PRK13824 replication initiation protein RepC; Provisional
Probab=46.59 E-value=13 Score=33.06 Aligned_cols=29 Identities=17% Similarity=0.099 Sum_probs=26.2
Q ss_pred cCCC-CCCChhhHHHHHHHHhcCcceeeec
Q 042599 20 LPKN-NKETPIILDRMLRLLASYSFLTCNL 48 (214)
Q Consensus 20 LA~~-~~~~~~~l~rlLr~L~~~gl~~~~~ 48 (214)
|+.. .|.++..|+|.|+.|+..|++....
T Consensus 88 La~r~~Gms~~tlrRhla~LveaGLI~rrD 117 (404)
T PRK13824 88 LSLRAHGMAGATLRRHLAALVEAGLIIRRD 117 (404)
T ss_pred HHHHHcCCCHHHHHHHHHHHHHCCCeEeec
Confidence 7776 5999999999999999999998864
No 199
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=45.68 E-value=76 Score=23.96 Aligned_cols=73 Identities=11% Similarity=0.088 Sum_probs=41.4
Q ss_pred CCceEEccC--CccHHHHHHhCCCc------hHHHH---hhccCCCceEEecCCCCc-ccCcc-ceeeeehhccCCChHH
Q 042599 132 SVPHTKAQS--GMDAFAAAAKDARM------NNLFN---QSMHNHTVVEHVSGHMFI-EVPNG-QALFMKWILSDWDDEE 198 (214)
Q Consensus 132 ~~~~~dvgG--G~~~~~~~~~~P~l------~~v~~---~~~~~~~rv~~~~gDff~-~~P~~-d~y~l~~ILHdw~d~~ 198 (214)
...++|+|. |.....++++...+ +..++ +.....++++++.+|+.+ +.|.. -.+++.+...+.+.+.
T Consensus 14 ~~~vLEiG~G~G~lt~~l~~~~~~v~~vE~~~~~~~~~~~~~~~~~~v~ii~~D~~~~~~~~~~~d~vi~n~Py~~~~~~ 93 (169)
T smart00650 14 GDTVLEIGPGKGALTEELLERAARVTAIEIDPRLAPRLREKFAAADNLTVIHGDALKFDLPKLQPYKVVGNLPYNISTPI 93 (169)
T ss_pred cCEEEEECCCccHHHHHHHhcCCeEEEEECCHHHHHHHHHHhccCCCEEEEECchhcCCccccCCCEEEECCCcccHHHH
Confidence 356899995 66666666654322 12222 222224689999999996 34432 2344566666655444
Q ss_pred HHHHHH
Q 042599 199 CLKILK 204 (214)
Q Consensus 199 ~~~IL~ 204 (214)
-.++++
T Consensus 94 i~~~l~ 99 (169)
T smart00650 94 LFKLLE 99 (169)
T ss_pred HHHHHh
Confidence 444443
No 200
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=45.46 E-value=12 Score=29.24 Aligned_cols=28 Identities=7% Similarity=0.049 Sum_probs=26.4
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+.+|++...++|+|..|...|++...
T Consensus 42 LA~~Lgi~~~~VRk~L~~L~e~gLv~~~ 69 (178)
T PRK06266 42 IAEQTGIKLNTVRKILYKLYDARLADYK 69 (178)
T ss_pred HHHHHCCCHHHHHHHHHHHHHCCCeEEe
Confidence 9999999999999999999999999854
No 201
>TIGR00438 rrmJ cell division protein FtsJ.
Probab=45.33 E-value=49 Score=25.50 Aligned_cols=81 Identities=11% Similarity=-0.022 Sum_probs=46.1
Q ss_pred CCceEEccC--CccHHHHHHhC-CCch-HHH--HhhccCCCceEEecCCCCcc---------cCc--cceeeeehhcc--
Q 042599 132 SVPHTKAQS--GMDAFAAAAKD-ARMN-NLF--NQSMHNHTVVEHVSGHMFIE---------VPN--GQALFMKWILS-- 192 (214)
Q Consensus 132 ~~~~~dvgG--G~~~~~~~~~~-P~l~-~v~--~~~~~~~~rv~~~~gDff~~---------~P~--~d~y~l~~ILH-- 192 (214)
...++|+|. |..+..++.+. +... ..+ +..+ ...+++++.+|+.++ .|. .|+++.....|
T Consensus 33 g~~VLDiG~GtG~~~~~l~~~~~~~~~v~~vDis~~~-~~~~i~~~~~d~~~~~~~~~l~~~~~~~~~D~V~~~~~~~~~ 111 (188)
T TIGR00438 33 GDTVLDLGAAPGGWSQVAVEQVGGKGRVIAVDLQPMK-PIENVDFIRGDFTDEEVLNKIRERVGDDKVDVVMSDAAPNIS 111 (188)
T ss_pred CCEEEEecCCCCHHHHHHHHHhCCCceEEEEeccccc-cCCCceEEEeeCCChhHHHHHHHHhCCCCccEEEcCCCCCCC
Confidence 356899996 44444455544 3211 001 1111 235688888998752 342 48888743222
Q ss_pred -CCCh------HHHHHHHHHhHHhcCCC
Q 042599 193 -DWDD------EECLKILKNCCVQCNTG 213 (214)
Q Consensus 193 -dw~d------~~~~~IL~~~~~Al~pg 213 (214)
.|+- +...++|+++.+.|+||
T Consensus 112 g~~~~~~~~~~~~~~~~l~~~~~~Lkpg 139 (188)
T TIGR00438 112 GYWDIDHLRSIDLVELALDIAKEVLKPK 139 (188)
T ss_pred CCccccHHHHHHHHHHHHHHHHHHccCC
Confidence 2332 23468899999999987
No 202
>COG1378 Predicted transcriptional regulators [Transcription]
Probab=45.16 E-value=31 Score=28.40 Aligned_cols=58 Identities=10% Similarity=0.076 Sum_probs=43.5
Q ss_pred HHHHHHHhCchhHH-cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhcccc
Q 042599 6 TMKTAIQLGVLEIM-LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYF 70 (214)
Q Consensus 6 ~L~~a~~lgifd~L-LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l 70 (214)
+-.+.+.+|-..+= +|+.+|++...++.+||-|...|+++..+. .|..|+.-+....+
T Consensus 21 vY~aLl~~g~~tA~eis~~sgvP~~kvY~vl~sLe~kG~v~~~~g-------~P~~y~av~p~~~i 79 (247)
T COG1378 21 VYLALLCLGEATAKEISEASGVPRPKVYDVLRSLEKKGLVEVIEG-------RPKKYRAVPPEELI 79 (247)
T ss_pred HHHHHHHhCCccHHHHHHHcCCCchhHHHHHHHHHHCCCEEeeCC-------CCceEEeCCHHHHH
Confidence 33444444444444 889999999999999999999999998631 27889887776644
No 203
>PF13659 Methyltransf_26: Methyltransferase domain; PDB: 3GJY_A 3LPM_B 2NP6_D 1AQI_B 2ADM_B 2IH2_A 2JG3_A 2IBS_D 2NP7_A 2IBT_A ....
Probab=44.46 E-value=32 Score=23.87 Aligned_cols=80 Identities=13% Similarity=0.043 Sum_probs=48.5
Q ss_pred ceEEccC--CccHHHHHHhCCC-c------hHHHHhhc------cCCCceEEecCCCCcc---cCc--cceeeeehhccC
Q 042599 134 PHTKAQS--GMDAFAAAAKDAR-M------NNLFNQSM------HNHTVVEHVSGHMFIE---VPN--GQALFMKWILSD 193 (214)
Q Consensus 134 ~~~dvgG--G~~~~~~~~~~P~-l------~~v~~~~~------~~~~rv~~~~gDff~~---~P~--~d~y~l~~ILHd 193 (214)
.++|.|. |..+...++..+. + +..++.+. ...++++++.+|+++. .+. -|+++..--.+.
T Consensus 3 ~vlD~~~G~G~~~~~~~~~~~~~~~gvdi~~~~~~~a~~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~D~Iv~npP~~~ 82 (117)
T PF13659_consen 3 RVLDPGCGSGTFLLAALRRGAARVTGVDIDPEAVELARRNLPRNGLDDRVEVIVGDARDLPEPLPDGKFDLIVTNPPYGP 82 (117)
T ss_dssp EEEEETSTTCHHHHHHHHHCTCEEEEEESSHHHHHHHHHHCHHCTTTTTEEEEESHHHHHHHTCTTT-EEEEEE--STTS
T ss_pred EEEEcCcchHHHHHHHHHHCCCeEEEEEECHHHHHHHHHHHHHccCCceEEEEECchhhchhhccCceeEEEEECCCCcc
Confidence 4778885 6666666665521 1 22222221 1246899999999863 443 388887655554
Q ss_pred CCh------HHHHHHHHHhHHhcCCC
Q 042599 194 WDD------EECLKILKNCCVQCNTG 213 (214)
Q Consensus 194 w~d------~~~~~IL~~~~~Al~pg 213 (214)
... +....+++++.+.|+||
T Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~L~~g 108 (117)
T PF13659_consen 83 RSGDKAALRRLYSRFLEAAARLLKPG 108 (117)
T ss_dssp BTT----GGCHHHHHHHHHHHHEEEE
T ss_pred ccccchhhHHHHHHHHHHHHHHcCCC
Confidence 321 23568899999999876
No 204
>PF09382 RQC: RQC domain; InterPro: IPR018982 This entry represents the RQC domain, which is a DNA-binding domain found only in RecQ family enzymes. RecQ family helicases can unwind G4 DNA, and play important roles at G-rich domains of the genome, including the telomeres, rDNA, and immunoglobulin switch regions. This domain has a helix-turn-helix structure and acts as a high affinity G4 DNA binding domain []. Binding of RecQ to Holliday junctions involves both the RQC and the HRDC domains.; GO: 0043140 ATP-dependent 3'-5' DNA helicase activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1OYW_A 1OYY_A 3AAF_A 2AXL_A 2V1X_B 2WWY_B.
Probab=44.23 E-value=27 Score=24.23 Aligned_cols=45 Identities=16% Similarity=0.181 Sum_probs=30.5
Q ss_pred CCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccCCCC
Q 042599 25 KETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFFPNE 74 (214)
Q Consensus 25 ~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~~~~ 74 (214)
+.+..-+.++++.|...|++.+... +..-.....|+.++.++.+.
T Consensus 53 ~~~~~~~~~li~~Li~~g~L~~~~~-----~~~~~~l~~~~~~~~~l~g~ 97 (106)
T PF09382_consen 53 DMSKDDWERLIRQLILEGYLSEDNG-----GFAYPYLKLTPKGKELLNGK 97 (106)
T ss_dssp TS-HHHHHHHHHHHHHTTSEEEEEC-----CCCTEEEEE-GGGHHHHCTT
T ss_pred cCCHHHHHHHHHHHHHcCCceecCC-----cccccEEEECHHHHHHHCCC
Confidence 5688899999999999999977621 00023667788887666543
No 205
>PHA00738 putative HTH transcription regulator
Probab=44.20 E-value=26 Score=25.09 Aligned_cols=29 Identities=10% Similarity=0.114 Sum_probs=26.9
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeec
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNL 48 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~ 48 (214)
|++..+++...+.+=|+.|...|+++..+
T Consensus 32 Lae~l~lSQptVS~HLKvLreAGLV~srK 60 (108)
T PHA00738 32 ISHTLLLSYTTVLRHLKILNEQGYIELYK 60 (108)
T ss_pred HHHhhCCCHHHHHHHHHHHHHCCceEEEE
Confidence 88889999999999999999999999863
No 206
>PF03551 PadR: Transcriptional regulator PadR-like family; InterPro: IPR005149 Phenolic acids, also called substituted hydroxycinnamic acids, are abundant in the plant kingdom because they are involved in the structure of plant cell walls and are present in some vacuoles. In plant-soil ecosystems they are released as free acids by hemicellulases produced by several fungi and bacteria. Of these weak acids, the most abundant are p-coumaric, ferulic, and caffeic acids, considered to be natural toxins that inhibit the growth of microorganisms, especially at low pHs. In spite of this chemical stress, some bacteria can use phenolic acids as a sole source of carbon. For other microorganisms, these compounds induce a specific response by which the organism adapts to its environment. The ubiquitous lactic acid bacterium Lactobacillus plantarum exhibits an inducible phenolic acid decarboxylase (PAD) activity which converts these substrates into less-toxic vinyl phenol derivatives. PadR acts as a repressor of padA gene expression in the phenolic acid stress response [].; PDB: 1XMA_B 2ESH_A 2DQL_B 3L9F_C 3ELK_B 4EJO_B 3L7W_A 3HHH_A 1YG2_A 3F8B_A ....
Probab=43.96 E-value=30 Score=22.45 Aligned_cols=46 Identities=17% Similarity=0.226 Sum_probs=33.0
Q ss_pred CCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccc
Q 042599 23 NNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRY 69 (214)
Q Consensus 23 ~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~ 69 (214)
...+++..++..|+-|...|+++...... ..|-....|+.|+.++.
T Consensus 26 ~~~i~~g~lY~~L~~Le~~gli~~~~~~~-~~~~~rk~Y~iT~~G~~ 71 (75)
T PF03551_consen 26 FWKISPGSLYPALKRLEEEGLIESRWEEE-GNGRPRKYYRITEKGRE 71 (75)
T ss_dssp TEETTHHHHHHHHHHHHHTTSEEEEEEEE-TTSSEEEEEEESHHHHH
T ss_pred CcccChhHHHHHHHHHHhCCCEEEeeecc-CCCCCCEEEEECHHHHH
Confidence 35689999999999999999998763210 01112356999988764
No 207
>PF00126 HTH_1: Bacterial regulatory helix-turn-helix protein, lysR family; InterPro: IPR000847 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family, the lysR family, groups together a range of proteins, including ampR, catM, catR, cynR, cysB, gltC, iciA, ilvY, irgB, lysR, metR, mkaC, mleR, nahR, nhaR, nodD, nolR, oxyR, pssR, rbcR, syrM, tcbR, tfdS and trpI [, , , , ]. The majority of these proteins appear to be transcription activators and most are known to negatively regulate their own expression. All possess a potential HTH DNA-binding motif towards their N-termini.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3T1B_D 3SZP_A 1O7L_C 1B9N_A 1B9M_A 3FZJ_J 3FXR_B 3FXQ_A 3FXU_A 2IJL_B ....
Probab=43.78 E-value=16 Score=22.72 Aligned_cols=38 Identities=11% Similarity=0.114 Sum_probs=28.7
Q ss_pred cCCCCCCChhhHHHHHHHHhc---CcceeeecccccCCCccccceecchhc
Q 042599 20 LPKNNKETPIILDRMLRLLAS---YSFLTCNLATNIKDGSAQRLYGLASVS 67 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~---~gl~~~~~~~~~~~g~~~~~y~~t~~s 67 (214)
-|+.+++++..+.+-++.|.. .-+|.+. ++.+.+|+.+
T Consensus 19 AA~~l~is~~~vs~~i~~LE~~lg~~Lf~r~----------~~~~~lT~~G 59 (60)
T PF00126_consen 19 AAEELGISQSAVSRQIKQLEEELGVPLFERS----------GRGLRLTEAG 59 (60)
T ss_dssp HHHHCTSSHHHHHHHHHHHHHHHTS-SEEEC----------SSSEEE-HHH
T ss_pred HHHHhhccchHHHHHHHHHHHHhCCeEEEEC----------CCCeeEChhh
Confidence 567799999999999998875 5678875 4568888765
No 208
>COG2512 Predicted membrane-associated trancriptional regulator [Transcription]
Probab=43.01 E-value=18 Score=30.04 Aligned_cols=29 Identities=17% Similarity=0.205 Sum_probs=27.3
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeec
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNL 48 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~ 48 (214)
|.+++|.+...+.|+||-|...|++++.+
T Consensus 216 L~r~lglsktTvsR~L~~LEk~GlIe~~K 244 (258)
T COG2512 216 LRRALGLSKTTVSRILRRLEKRGLIEKEK 244 (258)
T ss_pred HHHhhCCChHHHHHHHHHHHhCCceEEEE
Confidence 88899999999999999999999999874
No 209
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=42.80 E-value=14 Score=27.84 Aligned_cols=36 Identities=19% Similarity=0.294 Sum_probs=31.8
Q ss_pred HHhCchhHH----------cCCCCCCChhhHHHHHHHHhcCcceee
Q 042599 11 IQLGVLEIM----------LPKNNKETPIILDRMLRLLASYSFLTC 46 (214)
Q Consensus 11 ~~lgifd~L----------LA~~~~~~~~~l~rlLr~L~~~gl~~~ 46 (214)
.+..|.+.| ||+++|+++..+.+=++-|...|++..
T Consensus 10 ~D~~Il~~Lq~d~R~s~~eiA~~lglS~~tV~~Ri~rL~~~GvI~~ 55 (153)
T PRK11179 10 LDRGILEALMENARTPYAELAKQFGVSPGTIHVRVEKMKQAGIITG 55 (153)
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeee
Confidence 466677777 999999999999999999999999974
No 210
>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators. Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.
Probab=41.99 E-value=44 Score=23.50 Aligned_cols=25 Identities=16% Similarity=0.045 Sum_probs=22.6
Q ss_pred CCCChhhHHHHHHHHhcCcceeeec
Q 042599 24 NKETPIILDRMLRLLASYSFLTCNL 48 (214)
Q Consensus 24 ~~~~~~~l~rlLr~L~~~gl~~~~~ 48 (214)
.+++...++|.|+.|+..|++.+..
T Consensus 31 ~~i~~~TVYR~L~~L~~~Gli~~~~ 55 (116)
T cd07153 31 PSISLATVYRTLELLEEAGLVREIE 55 (116)
T ss_pred CCCCHHHHHHHHHHHHhCCCEEEEE
Confidence 4689999999999999999999873
No 211
>PRK14904 16S rRNA methyltransferase B; Provisional
Probab=41.97 E-value=1.2e+02 Score=27.01 Aligned_cols=48 Identities=17% Similarity=0.268 Sum_probs=32.7
Q ss_pred CceEEecCCCCcccCc--cceeeee-------------hhccCCChHHH-------HHHHHHhHHhcCCC
Q 042599 166 TVVEHVSGHMFIEVPN--GQALFMK-------------WILSDWDDEEC-------LKILKNCCVQCNTG 213 (214)
Q Consensus 166 ~rv~~~~gDff~~~P~--~d~y~l~-------------~ILHdw~d~~~-------~~IL~~~~~Al~pg 213 (214)
+.|+++.+|..+..|. -|++++- .+...|+.++. .+||+++.+.++||
T Consensus 301 ~~v~~~~~Da~~~~~~~~fD~Vl~D~Pcsg~g~~~r~p~~~~~~~~~~~~~l~~~q~~iL~~a~~~lkpg 370 (445)
T PRK14904 301 TIIETIEGDARSFSPEEQPDAILLDAPCTGTGVLGRRAELRWKLTPEKLAELVGLQAELLDHAASLLKPG 370 (445)
T ss_pred CeEEEEeCcccccccCCCCCEEEEcCCCCCcchhhcCcchhhcCCHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 4689999998764443 3888762 12223454443 47999999999997
No 212
>PLN02823 spermine synthase
Probab=41.87 E-value=82 Score=27.24 Aligned_cols=80 Identities=8% Similarity=-0.017 Sum_probs=46.4
Q ss_pred CceEEccC--CccHHHHHHhCCC-------c-hHHHHhhcc---------CCCceEEecCCCCcccC---c-cceeeeeh
Q 042599 133 VPHTKAQS--GMDAFAAAAKDAR-------M-NNLFNQSMH---------NHTVVEHVSGHMFIEVP---N-GQALFMKW 189 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~-------l-~~v~~~~~~---------~~~rv~~~~gDff~~~P---~-~d~y~l~~ 189 (214)
..++-+|| |..+.++++..+. + +.+++.+.. ..+|++.+.+|-++-+. + =|++++--
T Consensus 105 k~VLiiGgG~G~~~re~l~~~~~~~v~~VEiD~~vv~lar~~~~~~~~~~~dprv~v~~~Da~~~L~~~~~~yDvIi~D~ 184 (336)
T PLN02823 105 KTVFIMGGGEGSTAREVLRHKTVEKVVMCDIDQEVVDFCRKHLTVNREAFCDKRLELIINDARAELEKRDEKFDVIIGDL 184 (336)
T ss_pred CEEEEECCCchHHHHHHHhCCCCCeEEEEECCHHHHHHHHHhcccccccccCCceEEEEChhHHHHhhCCCCccEEEecC
Confidence 34677776 5556666664432 1 345544321 25799999999876332 2 28888762
Q ss_pred hccCCChH-----HHHHHHH-HhHHhcCCC
Q 042599 190 ILSDWDDE-----ECLKILK-NCCVQCNTG 213 (214)
Q Consensus 190 ILHdw~d~-----~~~~IL~-~~~~Al~pg 213 (214)
-..++.. .....++ .|++.|+||
T Consensus 185 -~dp~~~~~~~~Lyt~eF~~~~~~~~L~p~ 213 (336)
T PLN02823 185 -ADPVEGGPCYQLYTKSFYERIVKPKLNPG 213 (336)
T ss_pred -CCccccCcchhhccHHHHHHHHHHhcCCC
Confidence 2212111 1346676 788888876
No 213
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=41.59 E-value=15 Score=25.60 Aligned_cols=51 Identities=16% Similarity=0.158 Sum_probs=37.9
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccCCC
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFFPN 73 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~~~ 73 (214)
||+.++++...+.++++-|...|++...... .| ...-.+.+|+.++.+...
T Consensus 42 la~~l~i~~~~vt~~l~~Le~~glv~r~~~~--~D-rR~~~l~lT~~G~~~~~~ 92 (126)
T COG1846 42 LAERLGLDRSTVTRLLKRLEDKGLIERLRDP--ED-RRAVLVRLTEKGRELLEQ 92 (126)
T ss_pred HHHHHCCCHHHHHHHHHHHHHCCCeeecCCc--cc-cceeeEEECccHHHHHHH
Confidence 7788999999999999999999999986421 10 012357888888766544
No 214
>PF04492 Phage_rep_O: Bacteriophage replication protein O ; InterPro: IPR006497 This entry is represented by the N-terminal domain of Bacteriophage lambda, GpO. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; GO: 0006260 DNA replication
Probab=41.27 E-value=24 Score=24.87 Aligned_cols=28 Identities=7% Similarity=0.038 Sum_probs=26.2
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
+++.+|++...+.+-+..|+..+++...
T Consensus 60 ~~e~tg~~~~~V~~al~~Li~~~vI~~~ 87 (100)
T PF04492_consen 60 IAEMTGLSRDHVSKALNELIRRGVIIRD 87 (100)
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCCEEeC
Confidence 8889999999999999999999999774
No 215
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=40.95 E-value=14 Score=28.14 Aligned_cols=37 Identities=22% Similarity=0.237 Sum_probs=32.9
Q ss_pred HHHhCchhHH----------cCCCCCCChhhHHHHHHHHhcCcceee
Q 042599 10 AIQLGVLEIM----------LPKNNKETPIILDRMLRLLASYSFLTC 46 (214)
Q Consensus 10 a~~lgifd~L----------LA~~~~~~~~~l~rlLr~L~~~gl~~~ 46 (214)
-++..|.++| ||+++|+++..+.|=++-|...|+++.
T Consensus 14 ~~D~~IL~~Lq~d~R~s~~eiA~~lglS~~tv~~Ri~rL~~~GvI~~ 60 (164)
T PRK11169 14 RIDRNILNELQKDGRISNVELSKRVGLSPTPCLERVRRLERQGFIQG 60 (164)
T ss_pred HHHHHHHHHhccCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEE
Confidence 3577778877 999999999999999999999999974
No 216
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=40.92 E-value=17 Score=27.04 Aligned_cols=37 Identities=16% Similarity=0.243 Sum_probs=31.4
Q ss_pred HHhCchhHH----------cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 11 IQLGVLEIM----------LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 11 ~~lgifd~L----------LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
.+..|.+.| ||+++|+++..+.+-++-|...|++..-
T Consensus 9 ~D~~IL~~L~~d~r~~~~eia~~lglS~~~v~~Ri~~L~~~GiI~~~ 55 (154)
T COG1522 9 IDRRILRLLQEDARISNAELAERVGLSPSTVLRRIKRLEEEGVIKGY 55 (154)
T ss_pred HHHHHHHHHHHhCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCceeeE
Confidence 445555666 9999999999999999999999999864
No 217
>COG4901 Ribosomal protein S25 [Translation, ribosomal structure and biogenesis]
Probab=40.41 E-value=16 Score=25.82 Aligned_cols=28 Identities=14% Similarity=0.054 Sum_probs=26.4
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||.+.|+.-..-+++||.|...|++...
T Consensus 65 la~r~gI~~SvAr~vLR~LeeeGvv~lv 92 (107)
T COG4901 65 LASRYGINGSVARIVLRHLEEEGVVQLV 92 (107)
T ss_pred HHHHhccchHHHHHHHHHHHhCCceeee
Confidence 9999999999999999999999999875
No 218
>PF00392 GntR: Bacterial regulatory proteins, gntR family; InterPro: IPR000524 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon []. Family members include GntR, HutC, KorA, NtaR, FadR, ExuR, FarR, DgoR and PhnF. The crystal structure of the FadR protein has been determined []. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector-binding or oligomerisation domain at the C terminus (IPR011711 from INTERPRO). The DNA-binding domain is well conserved in structure for the whole of the GntR family, consisting of a 3-helical bundle core with a small beta-sheet (wing); the GntR winged helix structure is similar to that found in several other transcriptional regulator families. The regions outside the DNA-binding domain are more variable and are consequently used to define GntR subfamilies []. This entry represents the N-terminal DNA-binding domain of the GntR family.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1HW1_B 1H9T_A 1HW2_A 1H9G_A 1E2X_A 3IHU_A 3C7J_A 2RA5_A 3BY6_C 3IC7_A ....
Probab=40.37 E-value=11 Score=23.73 Aligned_cols=28 Identities=14% Similarity=0.170 Sum_probs=25.5
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+..|++...+++.|+.|...|+++..
T Consensus 30 la~~~~vsr~tvr~al~~L~~~g~i~~~ 57 (64)
T PF00392_consen 30 LAERYGVSRTTVREALRRLEAEGLIERR 57 (64)
T ss_dssp HHHHHTS-HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHhccCCcHHHHHHHHHHHCCcEEEE
Confidence 8888999999999999999999999876
No 219
>PF01325 Fe_dep_repress: Iron dependent repressor, N-terminal DNA binding domain; InterPro: IPR022687 The DtxR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 65 residues present in metalloregulators of the DtxR/MntR family. The family is named after Corynebacterium diphtheriae DtxR, an iron-specific diphtheria toxin repressor, and Bacillus subtilis MntR, a manganese transport regulator. Iron-responsive metalloregulators such as DtxR and IdeR occur in Gram-positive bacteria of the high GC branch, while manganese-responsive metalloregulators like MntR are described in diverse genera of Gram-positive and Gram-negative bacteria and also in Archaea [].The metalloregulators like DtxR/MntR contain the DNA-binding DtxR-type HTH domain usually in the N-terminal part. The C-terminal part contains a dimerisation domain with two metal-binding sites, although the primary metal-binding site is less conserved in the Mn(II)-regulators. Fe(II)-regulated proteins contain an SH3-like domain as a C-terminal extension, which is absent in Mn(II)-regulated MntR [, ]. Metal-ion dependent regulators orchestrate the virulence of several important human pathogens. The DtxR protein regulates the expression of diphtheria toxinin response to environmental iron concentrations. Furthermore, DtxR and IdeR control iron uptake []. Homeostasis of manganese, which is an essential nutrient, is regulated by MntR. A typical DtxR-type metalloregulator binds two divalent metal effectors per monomer, upon which allosteric changes occur that moderate binding to the cognate DNA operators. Iron-bound DtxR homodimers bind to an interrupted palindrome of 19 bp, protecting a sequence of ~30 bp. The crystal structures of iron-regulated and manganese-regulated repressors show that the DNA binding domain contains three alpha-helices and a pair of antiparallel beta-strands. Helices 2 and 3 comprise the helix-turn-helix motif and the beta-strands are called the wing []. This wHTH topology is similar to the lysR-type HTH (see PDOC00043 from PROSITEDOC). Most DtxR-type metalloregulators bind as dimers to the DNA major groove. Several proteins are known to contain a DtxR-type HTH domain. These include- Corynebacterium diphtheriae DtxR, a diphtheria toxin repressor [], which regulates the expression of the high-affinity iron uptake system, other iron-sensitive genes, and the bacteriophage tox gene. Metal-bound DtxR represses transcription by binding the tox operator; if iron is limiting, conformational changes of the wHTH disrupt DNA-binding and the diphtheria toxin is produced. Mycobacterium tuberculosis IdeR, an iron-dependent regulator that is essential for this pathogen. The regulator represses genes for iron acquisition and activates iron storage genes, and is a positive regulator of oxidative stress responses []. Bacillus subtilis MntR, a manganese transport regulator, binds Mn2+ as an effector and is a transcriptional repressor of transporters for the import of manganese. Treponema pallidum troR, a metal-dependent transcriptional repressor. Archaeoglobus fulgidus MDR1 (troR), a metal-dependent transcriptional repressor, which negatively regulates its own transcription. This entry covers the entire DtxR-type HTH domain.; GO: 0005506 iron ion binding; PDB: 3HRT_B 3HRS_A 3HRU_B 2X4H_D 1ON1_B 2HYF_C 2F5E_A 3R60_B 1ON2_B 2F5F_A ....
Probab=40.32 E-value=10 Score=23.87 Aligned_cols=28 Identities=18% Similarity=0.293 Sum_probs=25.9
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+.+|+.+..+...++-|...|+++..
T Consensus 28 iA~~L~vs~~tvt~ml~~L~~~GlV~~~ 55 (60)
T PF01325_consen 28 IAERLGVSPPTVTEMLKRLAEKGLVEYE 55 (60)
T ss_dssp HHHHHTS-HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHCCChHHHHHHHHHHHHCCCEEec
Confidence 9999999999999999999999999976
No 220
>TIGR01177 conserved hypothetical protein TIGR01177. This family is found exclusively in the Archaea.
Probab=40.08 E-value=1.2e+02 Score=25.82 Aligned_cols=47 Identities=9% Similarity=-0.107 Sum_probs=31.3
Q ss_pred ceEEecCCCCc-ccCc--cceeeee------hhc-cCCChHHHHHHHHHhHHhcCCC
Q 042599 167 VVEHVSGHMFI-EVPN--GQALFMK------WIL-SDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 167 rv~~~~gDff~-~~P~--~d~y~l~------~IL-Hdw~d~~~~~IL~~~~~Al~pg 213 (214)
.+.+..+|+.+ +.+. -|+++.- .-. .+...+--.++|+.+++.|+||
T Consensus 231 ~i~~~~~D~~~l~~~~~~~D~Iv~dPPyg~~~~~~~~~~~~l~~~~l~~~~r~Lk~g 287 (329)
T TIGR01177 231 DFFVKRGDATKLPLSSESVDAIATDPPYGRSTTAAGDGLESLYERSLEEFHEVLKSE 287 (329)
T ss_pred CCeEEecchhcCCcccCCCCEEEECCCCcCcccccCCchHHHHHHHHHHHHHHccCC
Confidence 37889999986 4443 3777762 111 1223345688999999999987
No 221
>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional
Probab=39.97 E-value=22 Score=32.30 Aligned_cols=61 Identities=13% Similarity=0.156 Sum_probs=44.7
Q ss_pred HHHHHHHhCchhHH-cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccCCC
Q 042599 6 TMKTAIQLGVLEIM-LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFFPN 73 (214)
Q Consensus 6 ~L~~a~~lgifd~L-LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~~~ 73 (214)
+|....+-+-.+.- ||+.++++...+.+++.-|.+.|+++.... . ...|.+|+-++.++.+
T Consensus 11 vL~~L~~~~~~s~~eLA~~l~l~~~tVt~~i~~Le~kGlV~~~~~---~----~~~i~LTeeG~~~~~~ 72 (489)
T PRK04172 11 VLKALKELKEATLEELAEKLGLPPEAVMRAAEWLEEKGLVKVEER---V----EEVYVLTEEGKKYAEE 72 (489)
T ss_pred HHHHHHhCCCCCHHHHHHHhCcCHHHHHHHHHHHHhCCCEEEEee---e----EEEEEECHHHHHHHHh
Confidence 34444333433333 999999999999999999999999987521 1 4678999998876654
No 222
>PF14338 Mrr_N: Mrr N-terminal domain
Probab=39.87 E-value=15 Score=25.05 Aligned_cols=36 Identities=6% Similarity=0.105 Sum_probs=27.1
Q ss_pred HHHHHHHHhcCcceeeecccccCCCccccceecchhccccCCCCC
Q 042599 31 LDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFFPNED 75 (214)
Q Consensus 31 l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~~~~~ 75 (214)
+.=-+-+|...|+++.++ .|.|.+|+.++.++..+|
T Consensus 57 i~Wa~~~L~~aGli~~~~---------rG~~~iT~~G~~~l~~~p 92 (92)
T PF14338_consen 57 IRWARSYLKKAGLIERPK---------RGIWRITEKGRKALAEHP 92 (92)
T ss_pred HHHHHHHHHHCCCccCCC---------CCceEECHhHHHHHhhCc
Confidence 333457889999998762 689999999987765543
No 223
>PRK10870 transcriptional repressor MprA; Provisional
Probab=39.70 E-value=17 Score=28.20 Aligned_cols=51 Identities=12% Similarity=0.063 Sum_probs=37.8
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccCCC
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFFPN 73 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~~~ 73 (214)
||+.++++...+.|++.-|...|++++.... +| ...-...+|+.++.+...
T Consensus 77 La~~l~l~~~tvsr~v~rLe~kGlV~R~~~~--~D-rR~~~v~LT~~G~~~~~~ 127 (176)
T PRK10870 77 LSCALGSSRTNATRIADELEKRGWIERRESD--ND-RRCLHLQLTEKGHEFLRE 127 (176)
T ss_pred HHHHHCCCHHHHHHHHHHHHHCCCEEecCCC--CC-CCeeEEEECHHHHHHHHH
Confidence 7888999999999999999999999986421 10 012346788888776543
No 224
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=39.66 E-value=42 Score=25.12 Aligned_cols=29 Identities=14% Similarity=0.045 Sum_probs=24.8
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeec
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNL 48 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~ 48 (214)
..+..++++..++|.|..|+..|++.+..
T Consensus 47 ~~~~p~islaTVYr~L~~l~e~Glv~~~~ 75 (145)
T COG0735 47 REEGPGISLATVYRTLKLLEEAGLVHRLE 75 (145)
T ss_pred HHhCCCCCHhHHHHHHHHHHHCCCEEEEE
Confidence 33457788999999999999999999873
No 225
>PF08672 APC2: Anaphase promoting complex (APC) subunit 2; InterPro: IPR014786 The anaphase-promoting complex (APC) or cyclosome is a multi-subunit E3 protein ubiquitin ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins, thereby targeting them for proteolysis by the 26S proteasome. Anaphase is initiated when the APC triggers the destruction of securin, thereby allowing the protease, separase, to disrupt sister-chromatid cohesion. Securin ubiquitination by the APC is inhibited by cyclin-dependent kinase 1 (Cdk1)-dependent phosphorylation []. Forkhead Box M1 (FoxM1), which is a transcription factor that is over-expressed in many cancers, is degraded in late mitosis and early G1 phase by the APC/cyclosome (APC/C) E3 ubiquitin ligase []. The APC/C targets mitotic cyclins for destruction in mitosis and G1 phase and is then inactivated at S phase. It thereby generates alternating states of high and low cyclin-Cdk activity, which is required for the alternation of mitosis and DNA replication []. The APC/C is composed of at least 13 subunits that stay tightly associated throughout the cell cycle: APC1, APC2, APC4, APC5, APC9, APC11, CDC16, CDC23, CDC26, CDC27, DOC1, MND2 and SWM1[], []. In fission yeast the 13 subunits are known as: Apc1, Apc2, Nuc2, Apc4, Apc5, Cut9, Apc8, Apc10, Apc11, Hcn1, Apc13, Apc14 and Apc15 []. This entry represents a C-terminal domain found in APC subunit 2. ; PDB: 1LDD_A.
Probab=38.03 E-value=41 Score=21.26 Aligned_cols=33 Identities=24% Similarity=0.275 Sum_probs=23.6
Q ss_pred CCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceec
Q 042599 21 PKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGL 63 (214)
Q Consensus 21 A~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~ 63 (214)
+...+.+.+-|+.+|.-++..|.++.. +|.|++
T Consensus 28 ~~~~~~s~~eL~~fL~~lv~e~~L~~~----------~G~YkL 60 (60)
T PF08672_consen 28 PGGYDISLEELQEFLDRLVEEGKLECS----------GGSYKL 60 (60)
T ss_dssp G--TT--HHHHHHHHHHHHHTTSEE------------TTEEEE
T ss_pred CCCCCCCHHHHHHHHHHHHHCCcEEec----------CCEEeC
Confidence 345778899999999999999999986 688874
No 226
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=38.02 E-value=71 Score=26.05 Aligned_cols=71 Identities=10% Similarity=0.037 Sum_probs=42.3
Q ss_pred CceEEccC--CccHHHHHHhCCCc------hHHHHhhc---cCCCceEEecCCCCc-ccCccc--eeeeehhccCCChHH
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM------NNLFNQSM---HNHTVVEHVSGHMFI-EVPNGQ--ALFMKWILSDWDDEE 198 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l------~~v~~~~~---~~~~rv~~~~gDff~-~~P~~d--~y~l~~ILHdw~d~~ 198 (214)
..++|+|. |.....++++.+.+ +..++.+. ...++++++.+|+.+ +.++.| .+++.++-.+++.+-
T Consensus 31 ~~VLEiG~G~G~lt~~L~~~~~~v~~iE~d~~~~~~l~~~~~~~~~v~v~~~D~~~~~~~~~d~~~~vvsNlPy~i~~~i 110 (253)
T TIGR00755 31 DVVLEIGPGLGALTEPLLKRAKKVTAIEIDPRLAEILRKLLSLYERLEVIEGDALKVDLPDFPKQLKVVSNLPYNISSPL 110 (253)
T ss_pred CEEEEeCCCCCHHHHHHHHhCCcEEEEECCHHHHHHHHHHhCcCCcEEEEECchhcCChhHcCCcceEEEcCChhhHHHH
Confidence 56899995 66666777776644 12222222 124689999999986 444323 466666665555544
Q ss_pred HHHHH
Q 042599 199 CLKIL 203 (214)
Q Consensus 199 ~~~IL 203 (214)
..++|
T Consensus 111 l~~ll 115 (253)
T TIGR00755 111 IFKLL 115 (253)
T ss_pred HHHHh
Confidence 44444
No 227
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=37.00 E-value=77 Score=26.23 Aligned_cols=45 Identities=9% Similarity=0.039 Sum_probs=29.1
Q ss_pred CceEEccC--CccHHHHHHhCCCc------hHHHHhhccC--CCceEEecCCCCc
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM------NNLFNQSMHN--HTVVEHVSGHMFI 177 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l------~~v~~~~~~~--~~rv~~~~gDff~ 177 (214)
..++|+|. |.....++++.+.+ +..++.+... .++++++.+|+.+
T Consensus 44 ~~VLEiG~G~G~lt~~L~~~~~~v~avE~d~~~~~~~~~~~~~~~v~~i~~D~~~ 98 (272)
T PRK00274 44 DNVLEIGPGLGALTEPLLERAAKVTAVEIDRDLAPILAETFAEDNLTIIEGDALK 98 (272)
T ss_pred CeEEEeCCCccHHHHHHHHhCCcEEEEECCHHHHHHHHHhhccCceEEEEChhhc
Confidence 46899995 66666777776644 2233332221 2689999999886
No 228
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=36.62 E-value=1e+02 Score=24.90 Aligned_cols=78 Identities=6% Similarity=0.099 Sum_probs=47.3
Q ss_pred CCCceEEccC--CccHHHHHHhCCC-c--------hHHHHhhc------cCCCceEEecCCCCcccC-------c-c-ce
Q 042599 131 GSVPHTKAQS--GMDAFAAAAKDAR-M--------NNLFNQSM------HNHTVVEHVSGHMFIEVP-------N-G-QA 184 (214)
Q Consensus 131 g~~~~~dvgG--G~~~~~~~~~~P~-l--------~~v~~~~~------~~~~rv~~~~gDff~~~P-------~-~-d~ 184 (214)
+...++++|- |..+..++..-|. - +...+.+. ...++|+++.||..+.+| . . |+
T Consensus 68 ~~~~vLEiGt~~G~s~l~la~~~~~~g~v~tiD~d~~~~~~A~~n~~~~gl~~~i~~~~gda~~~L~~l~~~~~~~~fD~ 147 (234)
T PLN02781 68 NAKNTLEIGVFTGYSLLTTALALPEDGRITAIDIDKEAYEVGLEFIKKAGVDHKINFIQSDALSALDQLLNNDPKPEFDF 147 (234)
T ss_pred CCCEEEEecCcccHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEEccHHHHHHHHHhCCCCCCCCE
Confidence 3456889994 7666666665442 1 12222221 113689999999986322 2 2 88
Q ss_pred eeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 185 LFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 185 y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
+|+- -+.+.-...+..+.+.|+||
T Consensus 148 VfiD-----a~k~~y~~~~~~~~~ll~~G 171 (234)
T PLN02781 148 AFVD-----ADKPNYVHFHEQLLKLVKVG 171 (234)
T ss_pred EEEC-----CCHHHHHHHHHHHHHhcCCC
Confidence 7773 33345557788888888887
No 229
>COG0220 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]
Probab=36.50 E-value=58 Score=26.48 Aligned_cols=22 Identities=14% Similarity=-0.041 Sum_probs=18.9
Q ss_pred CceEEcc-C-CccHHHHHHhCCCc
Q 042599 133 VPHTKAQ-S-GMDAFAAAAKDARM 154 (214)
Q Consensus 133 ~~~~dvg-G-G~~~~~~~~~~P~l 154 (214)
+.+++|| | |..+.++++++|+.
T Consensus 50 pi~lEIGfG~G~~l~~~A~~nP~~ 73 (227)
T COG0220 50 PIVLEIGFGMGEFLVEMAKKNPEK 73 (227)
T ss_pred cEEEEECCCCCHHHHHHHHHCCCC
Confidence 4679999 5 88889999999986
No 230
>PRK04214 rbn ribonuclease BN/unknown domain fusion protein; Reviewed
Probab=36.48 E-value=27 Score=30.95 Aligned_cols=28 Identities=18% Similarity=0.067 Sum_probs=26.5
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
|++.++++++.++++|..|...|++.+.
T Consensus 316 La~~l~~~~~~v~~iL~~L~~agLI~~~ 343 (412)
T PRK04214 316 IRRLEPMGYDELGELLCELARIGLLRRG 343 (412)
T ss_pred HHHHhCCCHHHHHHHHHHHHhCCCeEec
Confidence 8889999999999999999999999875
No 231
>PHA03411 putative methyltransferase; Provisional
Probab=36.23 E-value=96 Score=26.15 Aligned_cols=57 Identities=7% Similarity=-0.070 Sum_probs=36.4
Q ss_pred CceEEccC--CccHHHHHHhCCCc--------hHHHHhhccCCCceEEecCCCCcccC-c-cceeeeeh
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMHNHTVVEHVSGHMFIEVP-N-GQALFMKW 189 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~~~~rv~~~~gDff~~~P-~-~d~y~l~~ 189 (214)
..++|+|. |.....++.+.+.. +..++.+....++++++.+|+++..+ + -|+++.--
T Consensus 66 grVLDLGcGsGilsl~la~r~~~~~V~gVDisp~al~~Ar~n~~~v~~v~~D~~e~~~~~kFDlIIsNP 134 (279)
T PHA03411 66 GKVLDLCAGIGRLSFCMLHRCKPEKIVCVELNPEFARIGKRLLPEAEWITSDVFEFESNEKFDVVISNP 134 (279)
T ss_pred CeEEEcCCCCCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHhCcCCEEEECchhhhcccCCCcEEEEcC
Confidence 46899995 55455555655422 34455454445689999999997544 2 38887743
No 232
>PF03297 Ribosomal_S25: S25 ribosomal protein; InterPro: IPR004977 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S25 ribosomal protein is a component of the 40S ribosomal subunit.; PDB: 2XZM_8 2XZN_8 3O30_Q 3U5G_Z 3IZB_V 3U5C_Z 3O2Z_Q 3IZ6_V.
Probab=35.84 E-value=15 Score=26.13 Aligned_cols=28 Identities=21% Similarity=0.166 Sum_probs=26.5
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||++.++.-..-+++||.|...|++...
T Consensus 65 lserlkI~~SlAr~~Lr~L~~kG~Ik~V 92 (105)
T PF03297_consen 65 LSERLKINGSLARKALRELESKGLIKPV 92 (105)
T ss_dssp HHHHHCCSCHHHHHHHHHHHHCCSSEEE
T ss_pred HHHhHhhHHHHHHHHHHHHHHCCCEEEE
Confidence 8889999999999999999999999876
No 233
>KOG1271 consensus Methyltransferases [General function prediction only]
Probab=35.04 E-value=82 Score=25.15 Aligned_cols=46 Identities=7% Similarity=-0.096 Sum_probs=30.2
Q ss_pred CceEEcc-C-CccHHHHHHh-CCC-c------hHHHHhhc------cCCCceEEecCCCCcc
Q 042599 133 VPHTKAQ-S-GMDAFAAAAK-DAR-M------NNLFNQSM------HNHTVVEHVSGHMFIE 178 (214)
Q Consensus 133 ~~~~dvg-G-G~~~~~~~~~-~P~-l------~~v~~~~~------~~~~rv~~~~gDff~~ 178 (214)
+.++|.| | |+.++++++. ++. | +..++.|. .....|+|+.-|.++|
T Consensus 69 ~~VlDLGtGNG~~L~~L~~egf~~~L~GvDYs~~AV~LA~niAe~~~~~n~I~f~q~DI~~~ 130 (227)
T KOG1271|consen 69 DRVLDLGTGNGHLLFQLAKEGFQSKLTGVDYSEKAVELAQNIAERDGFSNEIRFQQLDITDP 130 (227)
T ss_pred cceeeccCCchHHHHHHHHhcCCCCccccccCHHHHHHHHHHHHhcCCCcceeEEEeeccCC
Confidence 4799999 5 8999988764 554 3 22233322 2234599999999875
No 234
>PRK14967 putative methyltransferase; Provisional
Probab=34.95 E-value=1.4e+02 Score=23.60 Aligned_cols=81 Identities=16% Similarity=0.066 Sum_probs=44.8
Q ss_pred CceEEccC--CccHHHHHHhCC-Cc------hHHHHhhc----cCCCceEEecCCCCcccCc--cceeeeeh--hcc---
Q 042599 133 VPHTKAQS--GMDAFAAAAKDA-RM------NNLFNQSM----HNHTVVEHVSGHMFIEVPN--GQALFMKW--ILS--- 192 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P-~l------~~v~~~~~----~~~~rv~~~~gDff~~~P~--~d~y~l~~--ILH--- 192 (214)
..++|+|. |..+..+..... ++ +..++.+. ....+++++.+|+++.+|. -|++++.- +-+
T Consensus 38 ~~vLDlGcG~G~~~~~la~~~~~~v~~vD~s~~~l~~a~~n~~~~~~~~~~~~~d~~~~~~~~~fD~Vi~npPy~~~~~~ 117 (223)
T PRK14967 38 RRVLDLCTGSGALAVAAAAAGAGSVTAVDISRRAVRSARLNALLAGVDVDVRRGDWARAVEFRPFDVVVSNPPYVPAPPD 117 (223)
T ss_pred CeEEEecCCHHHHHHHHHHcCCCeEEEEECCHHHHHHHHHHHHHhCCeeEEEECchhhhccCCCeeEEEECCCCCCCCcc
Confidence 56899996 444444444322 22 12222111 1123588999999987664 38887641 111
Q ss_pred ---------CCC-----hHHHHHHHHHhHHhcCCC
Q 042599 193 ---------DWD-----DEECLKILKNCCVQCNTG 213 (214)
Q Consensus 193 ---------dw~-----d~~~~~IL~~~~~Al~pg 213 (214)
.|. .+...++++++.+.|+||
T Consensus 118 ~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~Lk~g 152 (223)
T PRK14967 118 APPSRGPARAWDAGPDGRAVLDRLCDAAPALLAPG 152 (223)
T ss_pred cccccChhHhhhCCCcHHHHHHHHHHHHHHhcCCC
Confidence 111 112456888889999887
No 235
>TIGR00406 prmA ribosomal protein L11 methyltransferase. Ribosomal protein L11 methyltransferase is an S-adenosyl-L-methionine-dependent methyltransferase required for the modification of ribosomal protein L11. This protein is found in bacteria and (with a probable transit peptide) in Arabidopsis.
Probab=34.12 E-value=2.6e+02 Score=23.24 Aligned_cols=77 Identities=10% Similarity=-0.003 Sum_probs=41.9
Q ss_pred CCceEEccCCc--cHHHHHHhCCC-c------hHHHHhhcc------CCCceEEecCCCCcccCc-cceeeeehhccCCC
Q 042599 132 SVPHTKAQSGM--DAFAAAAKDAR-M------NNLFNQSMH------NHTVVEHVSGHMFIEVPN-GQALFMKWILSDWD 195 (214)
Q Consensus 132 ~~~~~dvgGG~--~~~~~~~~~P~-l------~~v~~~~~~------~~~rv~~~~gDff~~~P~-~d~y~l~~ILHdw~ 195 (214)
...++|+|.|. .+..+++..+. + +..++.+.. ...++....+|.....+. -|+++. +++
T Consensus 160 g~~VLDvGcGsG~lai~aa~~g~~~V~avDid~~al~~a~~n~~~n~~~~~~~~~~~~~~~~~~~~fDlVva-n~~---- 234 (288)
T TIGR00406 160 DKNVIDVGCGSGILSIAALKLGAAKVVGIDIDPLAVESARKNAELNQVSDRLQVKLIYLEQPIEGKADVIVA-NIL---- 234 (288)
T ss_pred CCEEEEeCCChhHHHHHHHHcCCCeEEEEECCHHHHHHHHHHHHHcCCCcceEEEecccccccCCCceEEEE-ecC----
Confidence 35789999744 44444433221 1 122222221 124566666663332232 488865 333
Q ss_pred hHHHHHHHHHhHHhcCCC
Q 042599 196 DEECLKILKNCCVQCNTG 213 (214)
Q Consensus 196 d~~~~~IL~~~~~Al~pg 213 (214)
-+.-..+++++.+.|+||
T Consensus 235 ~~~l~~ll~~~~~~Lkpg 252 (288)
T TIGR00406 235 AEVIKELYPQFSRLVKPG 252 (288)
T ss_pred HHHHHHHHHHHHHHcCCC
Confidence 234567899999999997
No 236
>PRK09462 fur ferric uptake regulator; Provisional
Probab=34.04 E-value=63 Score=24.04 Aligned_cols=25 Identities=12% Similarity=0.105 Sum_probs=22.5
Q ss_pred CCCCChhhHHHHHHHHhcCcceeee
Q 042599 23 NNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 23 ~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
..+++...++|.|+.|+..|++.+.
T Consensus 47 ~~~i~~aTVYR~L~~L~e~Gli~~~ 71 (148)
T PRK09462 47 GEEIGLATVYRVLNQFDDAGIVTRH 71 (148)
T ss_pred CCCCCHHHHHHHHHHHHHCCCEEEE
Confidence 3568899999999999999999886
No 237
>PRK14896 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Provisional
Probab=33.94 E-value=1.4e+02 Score=24.40 Aligned_cols=71 Identities=15% Similarity=0.117 Sum_probs=42.7
Q ss_pred CceEEccC--CccHHHHHHhCCCc------hHHHHhhc---cCCCceEEecCCCCc-ccCccceeeeehhccCCChHHHH
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM------NNLFNQSM---HNHTVVEHVSGHMFI-EVPNGQALFMKWILSDWDDEECL 200 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l------~~v~~~~~---~~~~rv~~~~gDff~-~~P~~d~y~l~~ILHdw~d~~~~ 200 (214)
..++|+|. |.....++++...+ +..++.+. ...++++++.+|+++ ++|..| .++.+.-++++.+.-.
T Consensus 31 ~~VLEIG~G~G~lt~~L~~~~~~v~~vEid~~~~~~l~~~~~~~~~v~ii~~D~~~~~~~~~d-~Vv~NlPy~i~s~~~~ 109 (258)
T PRK14896 31 DPVLEIGPGKGALTDELAKRAKKVYAIELDPRLAEFLRDDEIAAGNVEIIEGDALKVDLPEFN-KVVSNLPYQISSPITF 109 (258)
T ss_pred CeEEEEeCccCHHHHHHHHhCCEEEEEECCHHHHHHHHHHhccCCCEEEEEeccccCCchhce-EEEEcCCcccCcHHHH
Confidence 56899996 66666666664432 12232222 224689999999986 455445 4456777776654444
Q ss_pred HHHH
Q 042599 201 KILK 204 (214)
Q Consensus 201 ~IL~ 204 (214)
++++
T Consensus 110 ~l~~ 113 (258)
T PRK14896 110 KLLK 113 (258)
T ss_pred HHHh
Confidence 4443
No 238
>PF09243 Rsm22: Mitochondrial small ribosomal subunit Rsm22; InterPro: IPR015324 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Rsm22 has been identified as a mitochondrial small ribosomal subunit [] and is a methyltransferase. In Schizosaccharomyces pombe (Fission yeast), Rsm22 is tandemly fused to Cox11 (a factor required for copper insertion into cytochrome oxidase) and the two proteins are proteolytically cleaved after import into the mitochondria []. This entry consists of mitochondrial Rsm22 and homologous sequences from bacteria.; GO: 0008168 methyltransferase activity, 0006412 translation
Probab=33.76 E-value=1.2e+02 Score=25.31 Aligned_cols=79 Identities=8% Similarity=0.157 Sum_probs=47.1
Q ss_pred CceEEccC--CccHHHHHHhCCCchHH--HHh-------h---ccCCCceE--EecCCCC---cccCccceeeeehhccC
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARMNNL--FNQ-------S---MHNHTVVE--HVSGHMF---IEVPNGQALFMKWILSD 193 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l~~v--~~~-------~---~~~~~rv~--~~~gDff---~~~P~~d~y~l~~ILHd 193 (214)
..++|.|. |..+|+....+|.+.++ ++. + ........ ....++. .++++.|+++..++|-.
T Consensus 35 ~~vLD~GsGpGta~wAa~~~~~~~~~~~~vd~s~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~DLvi~s~~L~E 114 (274)
T PF09243_consen 35 RSVLDFGSGPGTALWAAREVWPSLKEYTCVDRSPEMLELAKRLLRAGPNNRNAEWRRVLYRDFLPFPPDDLVIASYVLNE 114 (274)
T ss_pred ceEEEecCChHHHHHHHHHHhcCceeeeeecCCHHHHHHHHHHHhcccccccchhhhhhhcccccCCCCcEEEEehhhhc
Confidence 46899995 77778777766654321 111 0 01111111 1112233 23444699999999999
Q ss_pred CChHHHHHHHHHhHHhcC
Q 042599 194 WDDEECLKILKNCCVQCN 211 (214)
Q Consensus 194 w~d~~~~~IL~~~~~Al~ 211 (214)
-+++.-..+++++-+...
T Consensus 115 L~~~~r~~lv~~LW~~~~ 132 (274)
T PF09243_consen 115 LPSAARAELVRSLWNKTA 132 (274)
T ss_pred CCchHHHHHHHHHHHhcc
Confidence 998888888888865543
No 239
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=33.10 E-value=29 Score=27.13 Aligned_cols=28 Identities=14% Similarity=0.063 Sum_probs=26.5
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||..+|+...-++|+|..|...|++...
T Consensus 38 la~~l~i~~~~vrriL~~L~e~~li~~~ 65 (176)
T COG1675 38 LAELLGIKKNEVRRILYALYEDGLISYR 65 (176)
T ss_pred HHHHhCccHHHHHHHHHHHHhCCceEEE
Confidence 9999999999999999999999999854
No 240
>PF07848 PaaX: PaaX-like protein; InterPro: IPR012906 This entry describes the N-terminal region of proteins that are similar to, and nclude, the product of the paaX gene of Escherichia coli (P76086 from SWISSPROT). PaaX is a transcriptional regulator that is always found in association with operons believed to be involved in the degradation of phenylacetic acid []. The gene product has been shown to bind to the promoter sites and repress their transcription []. ; PDB: 3KFW_X 3L09_B.
Probab=31.94 E-value=68 Score=20.91 Aligned_cols=41 Identities=17% Similarity=0.175 Sum_probs=30.0
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchh
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASV 66 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~ 66 (214)
+.+..|+++..++--|--|+..|+++... .|. ...|++|+-
T Consensus 29 ll~~~Gv~e~avR~alsRl~~~G~L~~~r-----~Gr-~~~Y~Lt~~ 69 (70)
T PF07848_consen 29 LLAAFGVSESAVRTALSRLVRRGWLESER-----RGR-RSYYRLTER 69 (70)
T ss_dssp HHCCTT--HHHHHHHHHHHHHTTSEEEEC-----CCT-EEEEEE-HH
T ss_pred HHHHcCCChHHHHHHHHHHHHcCceeeee-----cCc-cceEeeCCC
Confidence 67889999999999999999999999873 111 346888863
No 241
>PF02981 FokI_N: Restriction endonuclease FokI, recognition domain; InterPro: IPR004234 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. Thie entry represents the type IIS restriction endonuclease FokI (3.1.21.4 from EC), which is a member of an unusual class of bipartite restriction enzymes that recognise a specific DNA sequence and cleave DNA nonspecifically a short distance away from that sequence []. FokI contains amino- and carboxy-terminal domains corresponding to the DNA-recognition and cleavage functions (IPR004233 from INTERPRO), respectively. The recognition domain is made of three smaller subdomains (D1, D2 and D3) which are evolutionarily related to the helix-turn-helix-containing DNA-binding domain of the catabolite gene activator protein CAP []. ; GO: 0003677 DNA binding, 0009036 Type II site-specific deoxyribonuclease activity, 0009307 DNA restriction-modification system; PDB: 1FOK_A 2FOK_B.
Probab=31.91 E-value=28 Score=26.15 Aligned_cols=35 Identities=17% Similarity=0.367 Sum_probs=27.5
Q ss_pred hHHHHHHHHhcCcceeeecccccCCCccccceecchhccccCC
Q 042599 30 ILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFFP 72 (214)
Q Consensus 30 ~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~~ 72 (214)
.-.-.||-.+++|+++.+.+ .++|..|.+++.+..
T Consensus 108 ~Ad~flrwAvslgfl~~~~~--------~Dtf~IT~lG~~~~~ 142 (145)
T PF02981_consen 108 TADGFLRWAVSLGFLDYDRE--------TDTFSITELGKKYVK 142 (145)
T ss_dssp HHHHHHHHHHHTTSEEEETT--------TTEEEE-HHHHHHHH
T ss_pred CccceeeeeeeeCceeeccC--------CCEEEeehhHHHHhh
Confidence 34568999999999998732 789999999987653
No 242
>PRK00536 speE spermidine synthase; Provisional
Probab=31.70 E-value=1e+02 Score=25.71 Aligned_cols=70 Identities=6% Similarity=0.018 Sum_probs=40.5
Q ss_pred ceEEccC--CccHHHHHHhCCC-c------hHHHHhhcc---------CCCceEEecCCCCcccC-cc-ceeeeehhccC
Q 042599 134 PHTKAQS--GMDAFAAAAKDAR-M------NNLFNQSMH---------NHTVVEHVSGHMFIEVP-NG-QALFMKWILSD 193 (214)
Q Consensus 134 ~~~dvgG--G~~~~~~~~~~P~-l------~~v~~~~~~---------~~~rv~~~~gDff~~~P-~~-d~y~l~~ILHd 193 (214)
.++-+|| |-.+.++++. |+ . +.|++.+.. .++|++.+. ++...+ +- |+++.-.-
T Consensus 75 ~VLIiGGGDGg~~REvLkh-~~~v~mVeID~~Vv~~~k~~lP~~~~~~~DpRv~l~~--~~~~~~~~~fDVIIvDs~--- 148 (262)
T PRK00536 75 EVLIVDGFDLELAHQLFKY-DTHVDFVQADEKILDSFISFFPHFHEVKNNKNFTHAK--QLLDLDIKKYDLIICLQE--- 148 (262)
T ss_pred eEEEEcCCchHHHHHHHCc-CCeeEEEECCHHHHHHHHHHCHHHHHhhcCCCEEEee--hhhhccCCcCCEEEEcCC---
Confidence 4666776 6677787775 43 1 234443322 368999886 343333 22 87776531
Q ss_pred CChHHHHHHHHHhHHhcCCC
Q 042599 194 WDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 194 w~d~~~~~IL~~~~~Al~pg 213 (214)
.+ ..-.++|+++|+||
T Consensus 149 -~~---~~fy~~~~~~L~~~ 164 (262)
T PRK00536 149 -PD---IHKIDGLKRMLKED 164 (262)
T ss_pred -CC---hHHHHHHHHhcCCC
Confidence 22 34457778888876
No 243
>PRK06474 hypothetical protein; Provisional
Probab=31.62 E-value=43 Score=26.05 Aligned_cols=50 Identities=14% Similarity=0.132 Sum_probs=33.1
Q ss_pred cCCCC-CCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhcccc
Q 042599 20 LPKNN-KETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYF 70 (214)
Q Consensus 20 LA~~~-~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l 70 (214)
|++.+ +++...++|-|+.|...|++...+... .-|.....|+.++-+-.+
T Consensus 32 l~~~l~~is~aTvYrhL~~L~e~GLI~~~~~~~-~~~~~ek~y~~~~~~~~~ 82 (178)
T PRK06474 32 LVKILKDVPQATLYRHLQTMVDSGILHVVKEKK-VRSVSEKYYAINEEDAKI 82 (178)
T ss_pred HHHHhcCCCHHHHHHHHHHHHHCCCEEEeeccc-ccCceeEEEEeccceeee
Confidence 55555 688899999999999999999863210 001123457776655443
No 244
>COG2890 HemK Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]
Probab=31.55 E-value=66 Score=26.94 Aligned_cols=52 Identities=13% Similarity=0.064 Sum_probs=31.9
Q ss_pred ceEEccC--CccHHHHHHhCCCc--------hHHHHhhc----c-CCCceEEecCCCCcccCc-ccee
Q 042599 134 PHTKAQS--GMDAFAAAAKDARM--------NNLFNQSM----H-NHTVVEHVSGHMFIEVPN-GQAL 185 (214)
Q Consensus 134 ~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~----~-~~~rv~~~~gDff~~~P~-~d~y 185 (214)
.++|+|- |-.+..++.+.|+. +..++-+. . ...++.++.+|+|+++++ -|++
T Consensus 113 ~ilDlGTGSG~iai~la~~~~~~~V~a~Dis~~Al~~A~~Na~~~~l~~~~~~~~dlf~~~~~~fDlI 180 (280)
T COG2890 113 RILDLGTGSGAIAIALAKEGPDAEVIAVDISPDALALARENAERNGLVRVLVVQSDLFEPLRGKFDLI 180 (280)
T ss_pred cEEEecCChHHHHHHHHhhCcCCeEEEEECCHHHHHHHHHHHHHcCCccEEEEeeecccccCCceeEE
Confidence 5899994 66667788888853 22232221 1 125667777799987653 3544
No 245
>COG4190 Predicted transcriptional regulator [Transcription]
Probab=31.18 E-value=27 Score=25.97 Aligned_cols=28 Identities=18% Similarity=0.141 Sum_probs=26.4
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+.+|=+...+.|-|+.|+..|++.-.
T Consensus 84 lAe~vgRdv~nvhr~Ls~l~~~GlI~fe 111 (144)
T COG4190 84 LAELVGRDVKNVHRTLSTLADLGLIFFE 111 (144)
T ss_pred HHHHhCcchHHHHHHHHHHHhcCeEEEe
Confidence 8999999999999999999999999875
No 246
>PF05219 DREV: DREV methyltransferase; InterPro: IPR007884 This family contains DREV protein homologues from several eukaryotes. The function of this protein is unknown []. However, these proteins appear to be related to other methyltransferases.
Probab=30.56 E-value=71 Score=26.67 Aligned_cols=79 Identities=9% Similarity=-0.035 Sum_probs=45.9
Q ss_pred CceEEccC--CccHHHHHHhCCCch-HHHHhhcc---CCCceEEecCCCCcccC-ccceeeeehhccCCChHHHHHHHHH
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARMN-NLFNQSMH---NHTVVEHVSGHMFIEVP-NGQALFMKWILSDWDDEECLKILKN 205 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l~-~v~~~~~~---~~~rv~~~~gDff~~~P-~~d~y~l~~ILHdw~d~~~~~IL~~ 205 (214)
..++|+|. |.....+...+.++- .-+...|. ....++.+..|=+..-+ +=|++.+=|+|---.+ =..+|+.
T Consensus 96 ~~lLDlGAGdG~VT~~l~~~f~~v~aTE~S~~Mr~rL~~kg~~vl~~~~w~~~~~~fDvIscLNvLDRc~~--P~~LL~~ 173 (265)
T PF05219_consen 96 KSLLDLGAGDGEVTERLAPLFKEVYATEASPPMRWRLSKKGFTVLDIDDWQQTDFKFDVISCLNVLDRCDR--PLTLLRD 173 (265)
T ss_pred CceEEecCCCcHHHHHHHhhcceEEeecCCHHHHHHHHhCCCeEEehhhhhccCCceEEEeehhhhhccCC--HHHHHHH
Confidence 35899995 655555554444431 01111121 11234544444343333 2499999999965443 3689999
Q ss_pred hHHhcCCC
Q 042599 206 CCVQCNTG 213 (214)
Q Consensus 206 ~~~Al~pg 213 (214)
++.+++|+
T Consensus 174 i~~~l~p~ 181 (265)
T PF05219_consen 174 IRRALKPN 181 (265)
T ss_pred HHHHhCCC
Confidence 99999985
No 247
>COG4189 Predicted transcriptional regulator [Transcription]
Probab=30.19 E-value=46 Score=27.38 Aligned_cols=44 Identities=5% Similarity=0.240 Sum_probs=39.6
Q ss_pred hHHHHHHHHhCchhHH----------cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 4 PMTMKTAIQLGVLEIM----------LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 4 ~~~L~~a~~lgifd~L----------LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
-++|...+++.|.+.| +|+++|++...+.-=+..|...|+++-.
T Consensus 17 ~kalaS~vRv~Il~lL~~k~plNvneiAe~lgLpqst~s~~ik~Le~aGlirT~ 70 (308)
T COG4189 17 LKALASKVRVAILQLLHRKGPLNVNEIAEALGLPQSTMSANIKVLEKAGLIRTE 70 (308)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCCHHHHHHHhCCchhhhhhhHHHHHhcCceeee
Confidence 4688889999999999 9999999999999999999999999743
No 248
>PF11968 DUF3321: Putative methyltransferase (DUF3321); InterPro: IPR021867 This family is conserved in fungi and is annotated as being a nucleolar protein.
Probab=29.47 E-value=75 Score=25.75 Aligned_cols=76 Identities=8% Similarity=0.124 Sum_probs=47.1
Q ss_pred ceEEccCCccHHHHHHhCCCch-HHHHhhccCCCceEEecCCCCc-ccCc---c--ceeeeehhccCCCh-HHHHHHHHH
Q 042599 134 PHTKAQSGMDAFAAAAKDARMN-NLFNQSMHNHTVVEHVSGHMFI-EVPN---G--QALFMKWILSDWDD-EECLKILKN 205 (214)
Q Consensus 134 ~~~dvgGG~~~~~~~~~~P~l~-~v~~~~~~~~~rv~~~~gDff~-~~P~---~--d~y~l~~ILHdw~d-~~~~~IL~~ 205 (214)
.++||| -......+...+-+. ..|+... ..+.| ...||++ |+|+ . |++.++-||---|+ .+--++|++
T Consensus 54 rlLEVG-als~~N~~s~~~~fdvt~IDLns-~~~~I--~qqDFm~rplp~~~~e~FdvIs~SLVLNfVP~p~~RG~Ml~r 129 (219)
T PF11968_consen 54 RLLEVG-ALSTDNACSTSGWFDVTRIDLNS-QHPGI--LQQDFMERPLPKNESEKFDVISLSLVLNFVPDPKQRGEMLRR 129 (219)
T ss_pred eEEeec-ccCCCCcccccCceeeEEeecCC-CCCCc--eeeccccCCCCCCcccceeEEEEEEEEeeCCCHHHHHHHHHH
Confidence 478998 332233333333333 1122221 22333 3569996 8883 2 99999999988774 556689999
Q ss_pred hHHhcCCC
Q 042599 206 CCVQCNTG 213 (214)
Q Consensus 206 ~~~Al~pg 213 (214)
+++-|+|+
T Consensus 130 ~~~fL~~~ 137 (219)
T PF11968_consen 130 AHKFLKPP 137 (219)
T ss_pred HHHHhCCC
Confidence 99998764
No 249
>PRK14966 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional
Probab=29.37 E-value=2e+02 Score=25.85 Aligned_cols=55 Identities=15% Similarity=0.091 Sum_probs=33.3
Q ss_pred CceEEccCC--ccHHHHHHhCCCc--------hHHHHhhc----cCCCceEEecCCCCcc-cC-c--cceeee
Q 042599 133 VPHTKAQSG--MDAFAAAAKDARM--------NNLFNQSM----HNHTVVEHVSGHMFIE-VP-N--GQALFM 187 (214)
Q Consensus 133 ~~~~dvgGG--~~~~~~~~~~P~l--------~~v~~~~~----~~~~rv~~~~gDff~~-~P-~--~d~y~l 187 (214)
..++|+|.| ..+..++.+.|.. +..++.+. ....+|+++.+|++++ .| . -|+++.
T Consensus 253 ~rVLDLGcGSG~IaiaLA~~~p~a~VtAVDiS~~ALe~AreNa~~~g~rV~fi~gDl~e~~l~~~~~FDLIVS 325 (423)
T PRK14966 253 GRVWDLGTGSGAVAVTVALERPDAFVRASDISPPALETARKNAADLGARVEFAHGSWFDTDMPSEGKWDIIVS 325 (423)
T ss_pred CEEEEEeChhhHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCcEEEEEcchhccccccCCCccEEEE
Confidence 368999964 4445566667753 23333222 1234799999999864 34 2 277665
No 250
>TIGR02719 repress_PhaQ poly-beta-hydroxybutyrate-responsive repressor. Members of this family are transcriptional regulatory proteins found in the vicinity of poly-beta-hydroxybutyrate (PHB) operons in several species of Bacillus. This protein appears to have repressor activity modulated by PHB itself. This protein belongs to the larger PadR family (see pfam03551).
Probab=29.23 E-value=67 Score=24.02 Aligned_cols=48 Identities=21% Similarity=0.374 Sum_probs=33.0
Q ss_pred CCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccCC
Q 042599 24 NKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFFP 72 (214)
Q Consensus 24 ~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~~ 72 (214)
..+++..|+++|+-|...|+++...... +.|-....|++|+.++..+.
T Consensus 53 ~~v~~GtLYp~L~RLE~~GlI~~~~~~~-~~gp~RK~Y~LTe~Gr~~L~ 100 (138)
T TIGR02719 53 SSVDQGNVYRTLRKLEKDNLISSQWDTS-AEGPAKRIYSLTDAGEQYLS 100 (138)
T ss_pred CCCCcChHHHHHHHHHHCCCEEEEeeec-CCCCCcEEEEECHHHHHHHH
Confidence 4678899999999999999998631100 11111245899999887543
No 251
>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional
Probab=29.18 E-value=58 Score=29.80 Aligned_cols=54 Identities=13% Similarity=0.230 Sum_probs=43.4
Q ss_pred CchhHH-cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccCCCC
Q 042599 14 GVLEIM-LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFFPNE 74 (214)
Q Consensus 14 gifd~L-LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~~~~ 74 (214)
+..+.. ||+.+|++...+.+.+.-|.+.|+++-... . ...|.+|+-++.++.+.
T Consensus 20 ~~~~~~~la~~~~~~~~~v~~~~~~L~~kg~v~~~~~---~----~~~~~LT~eG~~~~~~G 74 (494)
T PTZ00326 20 EIVNSLALAESLNIDHQKVVGAIKSLESANYITTEMK---K----SNTWTLTEEGEDYLKNG 74 (494)
T ss_pred CCCCHHHHHHHcCCCHHHHHHHHHHHHhCCCEEEEEE---E----EEEEEECHHHHHHHHcC
Confidence 455555 999999999999999999999999876532 1 67899999998766553
No 252
>PRK00215 LexA repressor; Validated
Probab=29.03 E-value=31 Score=27.15 Aligned_cols=28 Identities=14% Similarity=0.256 Sum_probs=26.8
Q ss_pred cCCCCCC-ChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKE-TPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~-~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+.+|+ +...+.|+|+.|...|++++.
T Consensus 29 la~~~~~~~~~tv~~~l~~L~~~g~i~~~ 57 (205)
T PRK00215 29 IADALGLRSPSAVHEHLKALERKGFIRRD 57 (205)
T ss_pred HHHHhCCCChHHHHHHHHHHHHCCCEEeC
Confidence 9999999 999999999999999999886
No 253
>PRK05638 threonine synthase; Validated
Probab=29.00 E-value=30 Score=30.99 Aligned_cols=47 Identities=13% Similarity=0.157 Sum_probs=34.6
Q ss_pred cCCCCC--CChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccC
Q 042599 20 LPKNNK--ETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFF 71 (214)
Q Consensus 20 LA~~~~--~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~ 71 (214)
|++.++ ++...+.+.|+.|...|+++... ..| ..-.|++|+.++.++
T Consensus 390 l~~~l~~~~s~~~v~~hL~~Le~~GLV~~~~----~~g-~~~~Y~Lt~~g~~~l 438 (442)
T PRK05638 390 IWKALGKPLKYQAVYQHIKELEELGLIEEAY----RKG-RRVYYKLTEKGRRLL 438 (442)
T ss_pred HHHHHcccCCcchHHHHHHHHHHCCCEEEee----cCC-CcEEEEECcHHHHHH
Confidence 677776 78889999999999999998531 111 134588998877554
No 254
>KOG3010 consensus Methyltransferase [General function prediction only]
Probab=28.99 E-value=1.9e+02 Score=24.01 Aligned_cols=77 Identities=14% Similarity=0.030 Sum_probs=41.7
Q ss_pred cCCCceEEcc-C-CccHHHHHHhCCCc------hHHHHhhccCC------CceEEecCCCCccc--Cc-cceeeeehhcc
Q 042599 130 EGSVPHTKAQ-S-GMDAFAAAAKDARM------NNLFNQSMHNH------TVVEHVSGHMFIEV--PN-GQALFMKWILS 192 (214)
Q Consensus 130 ~g~~~~~dvg-G-G~~~~~~~~~~P~l------~~v~~~~~~~~------~rv~~~~gDff~~~--P~-~d~y~l~~ILH 192 (214)
.+....+||| | |+.++-++..+-++ ...++.++... ...+...-++++-. ++ -|.+.....+|
T Consensus 32 ~~h~~a~DvG~G~Gqa~~~iae~~k~VIatD~s~~mL~~a~k~~~~~y~~t~~~ms~~~~v~L~g~e~SVDlI~~Aqa~H 111 (261)
T KOG3010|consen 32 EGHRLAWDVGTGNGQAARGIAEHYKEVIATDVSEAMLKVAKKHPPVTYCHTPSTMSSDEMVDLLGGEESVDLITAAQAVH 111 (261)
T ss_pred CCcceEEEeccCCCcchHHHHHhhhhheeecCCHHHHHHhhcCCCcccccCCccccccccccccCCCcceeeehhhhhHH
Confidence 3444679999 4 86666666654433 23334333211 11222222333222 33 49999999999
Q ss_pred CCChHHHHHHHHHh
Q 042599 193 DWDDEECLKILKNC 206 (214)
Q Consensus 193 dw~d~~~~~IL~~~ 206 (214)
=++-++.-++..++
T Consensus 112 WFdle~fy~~~~rv 125 (261)
T KOG3010|consen 112 WFDLERFYKEAYRV 125 (261)
T ss_pred hhchHHHHHHHHHH
Confidence 88887765544443
No 255
>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e.g. KsgA) and the Erythromycin resistance methylases (Erm). The bacterial enzyme KsgA catalyses the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases in 16S rRNA. This enzyme and the resulting modified adenosine bases appear to be conserved in all species of eubacteria, eukaryotes, and archaea, and in eukaryotic organelles. Bacterial resistance to the aminoglycoside antibiotic kasugamycin involves inactivation of KsgA and resulting loss of the dimethylations, with modest consequences to the overall fitness of the organism. In contrast, the yeast ortholog, Dim1, is essential. In Saccharomyces cerevisiae (Baker's yeast), and presumably in other eukaryotes, the enzyme performs a vital role in pre-rRNA processing in addition to its methylating activity. The best conserved region in these enzymes is located in the N-terminal section and corresponds to a region that is probably involved in S-adenosyl methionine (SAM) binding domain. The crystal structure of KsgA from Escherichia coli has been solved to a resolution of 2.1A. It bears a strong similarity to the crystal structure of ErmC' from Bacillus stearothermophilus and a lesser similarity to the yeast mitochondrial transcription factor, sc-mtTFB []. The Erm family of RNA methyltransferases, which methylate a single adenosine base in 23S rRNA confer resistance to the MLS-B group of antibiotics. Despite their sequence similarity, the two enzyme families have strikingly different levels of regulation that remain to be elucidated. Other orthologs, of this family include the yeast and Homo sapiens (Human) mitochondrial transcription factors (MTF1 and h-mtTFB respectively), which are nuclear encoded []. Human-mtTFB is able to stimulate transcription in vitro independently of its S-adenosylmethionine binding and rRNA methyltransferase activity [].; GO: 0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity, 0008649 rRNA methyltransferase activity, 0000154 rRNA modification; PDB: 3FTF_A 3R9X_B 3FTE_A 3FTC_A 3FTD_A 3GRY_A 3FYC_A 3GRU_A 3FYD_A 3GRV_A ....
Probab=28.80 E-value=1.4e+02 Score=24.56 Aligned_cols=66 Identities=8% Similarity=0.094 Sum_probs=40.3
Q ss_pred CCCceEEccC--CccHHHHHHhCC---------CchHHHHhhccCCCceEEecCCCCc-ccCc----cceeeeehhccCC
Q 042599 131 GSVPHTKAQS--GMDAFAAAAKDA---------RMNNLFNQSMHNHTVVEHVSGHMFI-EVPN----GQALFMKWILSDW 194 (214)
Q Consensus 131 g~~~~~dvgG--G~~~~~~~~~~P---------~l~~v~~~~~~~~~rv~~~~gDff~-~~P~----~d~y~l~~ILHdw 194 (214)
....++++|. |.....+++... ++...+.+.....++++.+.+|+++ ..+. ....++.++-++-
T Consensus 30 ~~~~VlEiGpG~G~lT~~L~~~~~~v~~vE~d~~~~~~L~~~~~~~~~~~vi~~D~l~~~~~~~~~~~~~~vv~NlPy~i 109 (262)
T PF00398_consen 30 EGDTVLEIGPGPGALTRELLKRGKRVIAVEIDPDLAKHLKERFASNPNVEVINGDFLKWDLYDLLKNQPLLVVGNLPYNI 109 (262)
T ss_dssp TTSEEEEESSTTSCCHHHHHHHSSEEEEEESSHHHHHHHHHHCTTCSSEEEEES-TTTSCGGGHCSSSEEEEEEEETGTG
T ss_pred CCCEEEEeCCCCccchhhHhcccCcceeecCcHhHHHHHHHHhhhcccceeeecchhccccHHhhcCCceEEEEEecccc
Confidence 3466899995 777777766543 2333444433357899999999996 3333 3566667665543
Q ss_pred Ch
Q 042599 195 DD 196 (214)
Q Consensus 195 ~d 196 (214)
+.
T Consensus 110 s~ 111 (262)
T PF00398_consen 110 SS 111 (262)
T ss_dssp HH
T ss_pred hH
Confidence 33
No 256
>PRK10402 DNA-binding transcriptional activator YeiL; Provisional
Probab=28.78 E-value=36 Score=27.15 Aligned_cols=28 Identities=11% Similarity=-0.062 Sum_probs=26.4
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+.+|+..+.|.|+|+-|...|+++..
T Consensus 175 lA~~lG~sretvsR~L~~L~~~G~I~~~ 202 (226)
T PRK10402 175 AAEYLGVSYRHLLYVLAQFIQDGYLKKS 202 (226)
T ss_pred HHHHHCCcHHHHHHHHHHHHHCCCEEee
Confidence 8899999999999999999999999875
No 257
>PRK05473 hypothetical protein; Provisional
Probab=28.43 E-value=60 Score=22.18 Aligned_cols=24 Identities=17% Similarity=0.241 Sum_probs=18.9
Q ss_pred ccCCChHHHHHHHHHhHHhc-CCCC
Q 042599 191 LSDWDDEECLKILKNCCVQC-NTGI 214 (214)
Q Consensus 191 LHdw~d~~~~~IL~~~~~Al-~pg~ 214 (214)
..+-...++..||+.++.|| .+||
T Consensus 12 ~~~~~~~~v~eiL~~Vy~AL~EKGY 36 (86)
T PRK05473 12 FDDEKKKDVREILTTVYDALEEKGY 36 (86)
T ss_pred CCcccHHHHHHHHHHHHHHHHHcCC
Confidence 34455668999999999999 6776
No 258
>PF08461 HTH_12: Ribonuclease R winged-helix domain; InterPro: IPR013668 This domain is found at the amino terminus of Ribonuclease R and a number of presumed transcriptional regulatory proteins from archaea.
Probab=28.42 E-value=54 Score=21.01 Aligned_cols=23 Identities=13% Similarity=0.055 Sum_probs=18.7
Q ss_pred CCChhhHHHHHHHHhcCcceeee
Q 042599 25 KETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 25 ~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
.++++.++|-||+|...|+....
T Consensus 29 ~~se~avRrrLr~me~~Glt~~~ 51 (66)
T PF08461_consen 29 ELSEEAVRRRLRAMERDGLTRKV 51 (66)
T ss_pred hhhHHHHHHHHHHHHHCCCcccc
Confidence 34569999999999999966653
No 259
>PF01475 FUR: Ferric uptake regulator family; InterPro: IPR002481 The Ferric uptake regulator (FUR) family includes metal ion uptake regulator proteins. These are responsible for controlling the intracellular concentration of iron in many bacteria. Although iron is essential for most organisms, high concentrations can be toxic because of the formation of hydroxyl radicals []. FURs can also control zinc homeostasis [] and is the subject of research on the pathogenesis of mycobacteria.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1MZB_A 2RGV_B 2FE3_B 3F8N_B 3EYY_B 2W57_A 2FU4_A 2O03_A 3MWM_B 2XIG_B ....
Probab=28.38 E-value=66 Score=22.82 Aligned_cols=27 Identities=19% Similarity=0.124 Sum_probs=21.9
Q ss_pred CCCCCChhhHHHHHHHHhcCcceeeec
Q 042599 22 KNNKETPIILDRMLRLLASYSFLTCNL 48 (214)
Q Consensus 22 ~~~~~~~~~l~rlLr~L~~~gl~~~~~ 48 (214)
+...++...++|.|+.|...|++.+..
T Consensus 36 ~~~~is~~TVYR~L~~L~e~Gli~~~~ 62 (120)
T PF01475_consen 36 KGPRISLATVYRTLDLLEEAGLIRKIE 62 (120)
T ss_dssp TTTT--HHHHHHHHHHHHHTTSEEEEE
T ss_pred ccCCcCHHHHHHHHHHHHHCCeEEEEE
Confidence 446788899999999999999999873
No 260
>COG0421 SpeE Spermidine synthase [Amino acid transport and metabolism]
Probab=28.33 E-value=72 Score=26.86 Aligned_cols=77 Identities=6% Similarity=-0.048 Sum_probs=47.0
Q ss_pred ceEEccC--CccHHHHHHhCCCc--------hHHHHhhcc---------CCCceEEecCCCCc---ccCc-cceeeeehh
Q 042599 134 PHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMH---------NHTVVEHVSGHMFI---EVPN-GQALFMKWI 190 (214)
Q Consensus 134 ~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~---------~~~rv~~~~gDff~---~~P~-~d~y~l~~I 190 (214)
.++-+|| |..+.++++..+.- +.|++-+.. .++|++.+-+|=++ .-++ -|++++-
T Consensus 79 ~VLiiGgGdG~tlRevlkh~~ve~i~~VEID~~Vi~~ar~~l~~~~~~~~dpRv~i~i~Dg~~~v~~~~~~fDvIi~D-- 156 (282)
T COG0421 79 RVLIIGGGDGGTLREVLKHLPVERITMVEIDPAVIELARKYLPEPSGGADDPRVEIIIDDGVEFLRDCEEKFDVIIVD-- 156 (282)
T ss_pred eEEEECCCccHHHHHHHhcCCcceEEEEEcCHHHHHHHHHhccCcccccCCCceEEEeccHHHHHHhCCCcCCEEEEc--
Confidence 4667776 56666776665421 345554321 15899999999775 3333 4777654
Q ss_pred ccCCChHH-----HHHHHHHhHHhcCCC
Q 042599 191 LSDWDDEE-----CLKILKNCCVQCNTG 213 (214)
Q Consensus 191 LHdw~d~~-----~~~IL~~~~~Al~pg 213 (214)
-.++..- ...-.++|+++|+++
T Consensus 157 -~tdp~gp~~~Lft~eFy~~~~~~L~~~ 183 (282)
T COG0421 157 -STDPVGPAEALFTEEFYEGCRRALKED 183 (282)
T ss_pred -CCCCCCcccccCCHHHHHHHHHhcCCC
Confidence 1233111 467888899988775
No 261
>PF09202 Rio2_N: Rio2, N-terminal; InterPro: IPR015285 This N-terminal domain is found in RIO2 kinases, and is structurally homologous to the winged helix (wHTH) domain. It adopts a structure consisting of four alpha helices followed by two beta strands and a fifth alpha helix. The domain confers DNA binding properties to the protein, as per other winged helix domains []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1TQP_A 1ZAR_A 1TQI_A 1ZAO_A 1TQM_A.
Probab=28.27 E-value=26 Score=23.68 Aligned_cols=54 Identities=15% Similarity=0.133 Sum_probs=35.5
Q ss_pred HHHHHhCchhHH------cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhcc
Q 042599 8 KTAIQLGVLEIM------LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSR 68 (214)
Q Consensus 8 ~~a~~lgifd~L------LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~ 68 (214)
..|+|.|.=++= |++.+|++...+...|.-|...+++..... . -+.|++|-.+-
T Consensus 12 L~aiE~gmk~hE~VP~~~I~~~s~l~~~~~~~~L~~L~~~kLv~~~~~---~----Y~GYrLT~~GY 71 (82)
T PF09202_consen 12 LRAIEMGMKNHEWVPLELIEKISGLSEGEVEKRLKRLVKLKLVSRRNK---P----YDGYRLTFLGY 71 (82)
T ss_dssp HHHHHTTTTT-SSEEHHHHHHHHT--HHHHHHHHHHHHHTTSEEEE-S---S----S-EEEE-HHHH
T ss_pred HHHHHHcccCCccCCHHHHHHHhCcCHHHHHHHHHHHHhcCCccccCC---C----cceEEEeecch
Confidence 455565543332 788899999999999999999999998521 1 35688887653
No 262
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=27.98 E-value=39 Score=26.89 Aligned_cols=28 Identities=14% Similarity=0.122 Sum_probs=26.8
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||..+|+....+.|+|+.|...|+++..
T Consensus 190 iA~~lG~sr~tvsR~l~~l~~~g~I~~~ 217 (235)
T PRK11161 190 IGNYLGLTVETISRLLGRFQKSGMLAVK 217 (235)
T ss_pred HHHHhCCcHHHHHHHHHHHHHCCCEEec
Confidence 8999999999999999999999999975
No 263
>KOG3924 consensus Putative protein methyltransferase involved in meiosis and transcriptional silencing (Dot1) [Cell cycle control, cell division, chromosome partitioning; Transcription]
Probab=27.66 E-value=1.6e+02 Score=26.19 Aligned_cols=46 Identities=17% Similarity=0.310 Sum_probs=29.7
Q ss_pred CCceEEecCCCCcc------cCccceeeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 165 HTVVEHVSGHMFIE------VPNGQALFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 165 ~~rv~~~~gDff~~------~P~~d~y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
...++.+.|+|..+ +++++++++-++.- +++...++= ++..-+++|
T Consensus 250 ~~~~~~i~gsf~~~~~v~eI~~eatvi~vNN~~F--dp~L~lr~~-eil~~ck~g 301 (419)
T KOG3924|consen 250 PNKIETIHGSFLDPKRVTEIQTEATVIFVNNVAF--DPELKLRSK-EILQKCKDG 301 (419)
T ss_pred cCceeecccccCCHHHHHHHhhcceEEEEecccC--CHHHHHhhH-HHHhhCCCc
Confidence 34689999999964 45689999999874 444443332 444444443
No 264
>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain
Probab=27.12 E-value=61 Score=29.60 Aligned_cols=62 Identities=5% Similarity=0.074 Sum_probs=46.4
Q ss_pred HHHHHHHHhC-chhHH-cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccCCC
Q 042599 5 MTMKTAIQLG-VLEIM-LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFFPN 73 (214)
Q Consensus 5 ~~L~~a~~lg-ifd~L-LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~~~ 73 (214)
..|....+.+ ..+.- ||+.+|++...+.+.+.-|.+.|+++-... . ...|.+|+-++.++.+
T Consensus 7 ~iL~~l~~~~~~~~~~~la~~~g~~~~~v~~~~~~L~~kg~v~~~~~---~----~~~~~LT~eG~~~l~~ 70 (492)
T PLN02853 7 ALLGALSNNEEISDSGQFAASHGLDHNEVVGVIKSLHGFRYVDAQDI---K----RETWVLTEEGKKYAAE 70 (492)
T ss_pred HHHHHHHhcCCCCCHHHHHHHcCCCHHHHHHHHHHHHhCCCEEEEEE---E----EEEEEECHHHHHHHHc
Confidence 3444444444 34554 899999999999999999999999875532 1 6789999999876654
No 265
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=27.10 E-value=30 Score=23.97 Aligned_cols=28 Identities=7% Similarity=0.109 Sum_probs=24.2
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
|++.+++++..++..++.|+..|.+-.+
T Consensus 71 I~~~l~~~~~~v~~al~~L~~eG~IYsT 98 (102)
T PF08784_consen 71 IAQQLGMSENEVRKALDFLSNEGHIYST 98 (102)
T ss_dssp HHHHSTS-HHHHHHHHHHHHHTTSEEES
T ss_pred HHHHhCcCHHHHHHHHHHHHhCCeEecc
Confidence 7778899999999999999999998764
No 266
>PF08820 DUF1803: Domain of unknown function (DUF1803); InterPro: IPR014924 This small protein is found in one or two copies in bacteria. The function of this is unknown.
Probab=26.78 E-value=57 Score=22.69 Aligned_cols=30 Identities=17% Similarity=0.253 Sum_probs=24.7
Q ss_pred CChhhHHHHHHHHhcCcceeeecccccCCCccccceecch
Q 042599 26 ETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLAS 65 (214)
Q Consensus 26 ~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~ 65 (214)
.....+.|++..++..|++.+. +++|.++=
T Consensus 39 ~~qk~~D~fie~li~~GYI~re----------~krY~L~~ 68 (93)
T PF08820_consen 39 PKQKRLDIFIEALIKLGYIERE----------EKRYYLNL 68 (93)
T ss_pred ccccchhHHHHHHHHcCCeEec----------CCEEEEec
Confidence 3467889999999999999984 68888753
No 267
>PF02319 E2F_TDP: E2F/DP family winged-helix DNA-binding domain; InterPro: IPR003316 The mammalian transcription factor E2F plays an important role in regulating the expression of genes that are required for passage through the cell cycle. Multiple E2F family members have been identified that bind to DNA as heterodimers, interacting with proteins known as DP - the dimerisation partners [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005667 transcription factor complex; PDB: 1CF7_B.
Probab=26.58 E-value=32 Score=22.39 Aligned_cols=28 Identities=7% Similarity=0.133 Sum_probs=25.1
Q ss_pred cCCCC---CC--ChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNN---KE--TPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~---~~--~~~~l~rlLr~L~~~gl~~~~ 47 (214)
+|+.+ +. ..++++-++.+|.++|+++..
T Consensus 30 ia~~l~~~~~k~~~RRlYDI~NVLealgli~K~ 62 (71)
T PF02319_consen 30 IADKLISENVKTQRRRLYDIINVLEALGLIEKQ 62 (71)
T ss_dssp HHHHCHHHCCHHHCHHHHHHHHHHHHCTSEEEE
T ss_pred HHHHHcccccccccchhhHHHHHHHHhCceeec
Confidence 66677 87 899999999999999999985
No 268
>PRK14902 16S rRNA methyltransferase B; Provisional
Probab=26.37 E-value=3.3e+02 Score=24.27 Aligned_cols=81 Identities=12% Similarity=0.035 Sum_probs=46.4
Q ss_pred CceEEccC--CccHHHHHHhC-CC-------c-hHHHHhhc-----cCCCceEEecCCCCcc---cCc-cceeeeeh---
Q 042599 133 VPHTKAQS--GMDAFAAAAKD-AR-------M-NNLFNQSM-----HNHTVVEHVSGHMFIE---VPN-GQALFMKW--- 189 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~-P~-------l-~~v~~~~~-----~~~~rv~~~~gDff~~---~P~-~d~y~l~~--- 189 (214)
..++|+|. |.....+++.. |. + +..++.+. ...+.|+++.+|+.+. ++. -|++++--
T Consensus 252 ~~VLDlgaG~G~~t~~la~~~~~~~~v~avDi~~~~l~~~~~n~~~~g~~~v~~~~~D~~~~~~~~~~~fD~Vl~D~Pcs 331 (444)
T PRK14902 252 DTVLDACAAPGGKTTHIAELLKNTGKVVALDIHEHKLKLIEENAKRLGLTNIETKALDARKVHEKFAEKFDKILVDAPCS 331 (444)
T ss_pred CEEEEeCCCCCHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHcCCCeEEEEeCCcccccchhcccCCEEEEcCCCC
Confidence 45899996 55455555543 32 1 12222211 1124599999999753 332 38887631
Q ss_pred ---hc-------cCCChHH-------HHHHHHHhHHhcCCC
Q 042599 190 ---IL-------SDWDDEE-------CLKILKNCCVQCNTG 213 (214)
Q Consensus 190 ---IL-------Hdw~d~~-------~~~IL~~~~~Al~pg 213 (214)
++ -.|+.++ ...||+++.+.|+||
T Consensus 332 g~G~~~~~p~~~~~~~~~~~~~l~~~q~~iL~~a~~~LkpG 372 (444)
T PRK14902 332 GLGVIRRKPDIKYNKTKEDIESLQEIQLEILESVAQYLKKG 372 (444)
T ss_pred CCeeeccCcchhhcCCHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 11 1233333 357899999999997
No 269
>COG2813 RsmC 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]
Probab=26.29 E-value=3.3e+02 Score=23.21 Aligned_cols=80 Identities=9% Similarity=0.044 Sum_probs=53.1
Q ss_pred ceEEccC--CccHHHHHHhCCCch--------HHHHhhcc-----CCCceEEecCCCCcccCc-cceeeeehhccC---C
Q 042599 134 PHTKAQS--GMDAFAAAAKDARMN--------NLFNQSMH-----NHTVVEHVSGHMFIEVPN-GQALFMKWILSD---W 194 (214)
Q Consensus 134 ~~~dvgG--G~~~~~~~~~~P~l~--------~v~~~~~~-----~~~rv~~~~gDff~~~P~-~d~y~l~~ILHd---w 194 (214)
.+.|+|. |.....+++.+|+.. .-++.+.. ...+.++...|.|++++. =|.++.-==+|. -
T Consensus 161 ~vlDlGCG~Gvlg~~la~~~p~~~vtmvDvn~~Av~~ar~Nl~~N~~~~~~v~~s~~~~~v~~kfd~IisNPPfh~G~~v 240 (300)
T COG2813 161 KVLDLGCGYGVLGLVLAKKSPQAKLTLVDVNARAVESARKNLAANGVENTEVWASNLYEPVEGKFDLIISNPPFHAGKAV 240 (300)
T ss_pred cEEEeCCCccHHHHHHHHhCCCCeEEEEecCHHHHHHHHHhHHHcCCCccEEEEecccccccccccEEEeCCCccCCcch
Confidence 6899996 667778899999542 12222221 122336778899987764 377666544453 3
Q ss_pred ChHHHHHHHHHhHHhcCCC
Q 042599 195 DDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 195 ~d~~~~~IL~~~~~Al~pg 213 (214)
.++-+.+|++...+.|++|
T Consensus 241 ~~~~~~~~i~~A~~~L~~g 259 (300)
T COG2813 241 VHSLAQEIIAAAARHLKPG 259 (300)
T ss_pred hHHHHHHHHHHHHHhhccC
Confidence 4555679999999999887
No 270
>KOG2165 consensus Anaphase-promoting complex (APC), subunit 2 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=26.02 E-value=40 Score=31.97 Aligned_cols=41 Identities=15% Similarity=-0.038 Sum_probs=34.1
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecch
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLAS 65 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~ 65 (214)
||+.+|+++..|+|-|......|++.+.. +-+.+++|+.++
T Consensus 622 lse~l~ip~~~lrrrL~fWi~~GvL~e~~-----~~s~tgt~T~iE 662 (765)
T KOG2165|consen 622 LSESLGIPVPALRRRLSFWIQKGVLREEP-----IISDTGTLTVIE 662 (765)
T ss_pred HHHHhCCCHHHHHHHHHHHHHcCeeecCC-----CCCCCceeeecc
Confidence 88999999999999999999999999862 112357888777
No 271
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=25.96 E-value=58 Score=23.98 Aligned_cols=41 Identities=17% Similarity=0.229 Sum_probs=33.9
Q ss_pred HHHHHHhCchhHH----------cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 7 MKTAIQLGVLEIM----------LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 7 L~~a~~lgifd~L----------LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
=+..+...|.+.+ ++..+|++-..+.+.+|.|++.|-+...
T Consensus 9 er~eLk~rIvElVRe~GRiTi~ql~~~TGasR~Tvk~~lreLVa~G~l~~~ 59 (127)
T PF06163_consen 9 EREELKARIVELVREHGRITIKQLVAKTGASRNTVKRYLRELVARGDLYRH 59 (127)
T ss_pred HHHHHHHHHHHHHHHcCCccHHHHHHHHCCCHHHHHHHHHHHHHcCCeEeC
Confidence 3455666677776 7788999999999999999999999875
No 272
>PF06969 HemN_C: HemN C-terminal domain; InterPro: IPR010723 Proteins containing this domain are all oxygen-independent coproporphyrinogen-III oxidases (HemN). This enzyme catalyses the oxygen-independent conversion of coproporphyrinogen-III to protoporphyrinogen-IX [], one of the last steps in haem biosynthesis. The function of this domain is unclear, but comparison to other proteins containing a radical SAM domain suggest it may be a substrate binding domain.; GO: 0004109 coproporphyrinogen oxidase activity, 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 1OLT_A.
Probab=25.85 E-value=87 Score=19.48 Aligned_cols=39 Identities=13% Similarity=0.053 Sum_probs=26.2
Q ss_pred cCCCCCCChh-hHHHHHHHHhcCcceeeecccccCCCccccceecchhcc
Q 042599 20 LPKNNKETPI-ILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSR 68 (214)
Q Consensus 20 LA~~~~~~~~-~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~ 68 (214)
+.++.|.+.. .....+.-+...|+++.+ +++++.|+.++
T Consensus 26 ~~~~~g~~~~~~~~~~l~~l~~~Gll~~~----------~~~l~lT~~G~ 65 (66)
T PF06969_consen 26 FEQRFGIDFAEEFQKELEELQEDGLLEID----------GGRLRLTEKGR 65 (66)
T ss_dssp HHHHTT--THHH-HHHHHHHHHTTSEEE-----------SSEEEE-TTTG
T ss_pred HHHHHCcCHHHHHHHHHHHHHHCCCEEEe----------CCEEEECcccC
Confidence 4556676633 347778899999999986 78999998764
No 273
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase.
Probab=25.49 E-value=3.6e+02 Score=22.11 Aligned_cols=48 Identities=10% Similarity=0.160 Sum_probs=31.2
Q ss_pred CceEEecCCCCc-ccC--ccceeeee-------------hhccCCChHHH-------HHHHHHhHHhcCCC
Q 042599 166 TVVEHVSGHMFI-EVP--NGQALFMK-------------WILSDWDDEEC-------LKILKNCCVQCNTG 213 (214)
Q Consensus 166 ~rv~~~~gDff~-~~P--~~d~y~l~-------------~ILHdw~d~~~-------~~IL~~~~~Al~pg 213 (214)
..|+++.+|..+ +.+ +-|++++- .+...|++++. .+||+++.+.++||
T Consensus 122 ~~v~~~~~D~~~~~~~~~~fD~Vl~D~Pcsg~G~~~~~p~~~~~~~~~~~~~l~~~q~~iL~~a~~~lkpg 192 (264)
T TIGR00446 122 LNVAVTNFDGRVFGAAVPKFDAILLDAPCSGEGVIRKDPSRKKNWSEEDIQEISALQKELIDSAFDALKPG 192 (264)
T ss_pred CcEEEecCCHHHhhhhccCCCEEEEcCCCCCCcccccChhhhhcCCHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 468888888643 112 24777652 12234776655 56999999999986
No 274
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=25.16 E-value=41 Score=24.21 Aligned_cols=28 Identities=11% Similarity=0.043 Sum_probs=26.8
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+.+.++++.++++|+-+...|.++=.
T Consensus 25 lA~~l~cS~Rn~r~lLkkm~~~gWi~W~ 52 (115)
T PF12793_consen 25 LAELLFCSRRNARTLLKKMQEEGWITWQ 52 (115)
T ss_pred HHHHhCCCHHHHHHHHHHHHHCCCeeee
Confidence 8899999999999999999999999976
No 275
>cd07922 CarBa CarBa is the A subunit of 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. CarBa is the A subunit of 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. 2-aminophenol 1,6-dioxygenase is a key enzyme in the carbazole degradation pathway isolated from bacterial strains with carbazole degradation ability. The enzyme is a heterotetramer composed of two A and two B subunits. CarB belongs to the class III extradiol dioxygenase family, composed of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Although the enzyme was originally isolated as a meta-cleavage enzyme for 2'-aminobiphenyl-2,3-diol involved in carbazole degradation, the enzyme has also shown high specificity for 2,3-dihydroxybiphenyl.
Probab=25.07 E-value=45 Score=22.55 Aligned_cols=55 Identities=22% Similarity=0.196 Sum_probs=30.6
Q ss_pred cchhhhcchhhHhhHH----hhhhhccHH----HHHhcCC-CceEEccCCccHHH---HHHhCCCchH
Q 042599 101 QHSYLCMKDALLEGFI----NTLNRYYLK----NALLEGS-VPHTKAQSGMDAFA---AAAKDARMNN 156 (214)
Q Consensus 101 ~~~~~~~~p~~~~~f~----~~m~~~~~~----~~~~~g~-~~~~dvgGG~~~~~---~~~~~P~l~~ 156 (214)
+++-|..+|+..++|. ..|+.+.+. +++++|+ ..+...| ++.... ..-.||+.+.
T Consensus 9 li~~L~~dp~~rerF~~DPea~~~~~gLt~eE~~aL~~~D~~~L~~lG-vhp~L~mh~~~~~np~~~~ 75 (81)
T cd07922 9 LIQELFKDPGLIERFQDDPSAVFEEYGLTPAERAALREGTFGALTSIG-VHPILQMHYLMYTNPEMAK 75 (81)
T ss_pred HHHHHhcCHHHHHHHHHCHHHHHHHcCCCHHHHHHHHccCHHHHHHcC-CCHHHHHHHHHHcCccccc
Confidence 3445667777777665 334444443 3556665 3355666 554443 3567888753
No 276
>PF01564 Spermine_synth: Spermine/spermidine synthase; InterPro: IPR001045 Synonym(s): Spermidine aminopropyltransferase A group of polyamine biosynthetic enzymes involved in the fifth (last) step in the biosynthesis of spermidine from arginine and methionine which includes; spermidine synthase (2.5.1.16 from EC), spermine synthase (2.5.1.22 from EC) and putrescine N-methyltransferase (2.1.1.53 from EC) []. The Thermotoga maritima spermidine synthase monomer consists of two domains: an N-terminal domain composed of six beta-strands, and a Rossmann-like C- terminal domain []. The larger C-terminal catalytic core domain consists of a seven-stranded beta-sheet flanked by nine alpha helices. This domain resembles a topology observed in a number of nucleotide and dinucleotide-binding enzymes, and in S-adenosyl-L-methionine (AdoMet)- dependent methyltransferase (MTases) [].; GO: 0003824 catalytic activity; PDB: 2E5W_C 2ZSU_E 2O0L_B 2O05_B 2O06_B 2O07_B 3RW9_B 2PWP_A 2HTE_B 3RIE_B ....
Probab=24.90 E-value=1.6e+02 Score=24.05 Aligned_cols=81 Identities=9% Similarity=-0.016 Sum_probs=41.8
Q ss_pred CceEEccC--CccHHHHHHhCCCc--------hHHHHhhcc---------CCCceEEecCCCCc---ccCc-c-ceeeee
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMH---------NHTVVEHVSGHMFI---EVPN-G-QALFMK 188 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~---------~~~rv~~~~gDff~---~~P~-~-d~y~l~ 188 (214)
..++-+|| |..+.++++..|.. +.|++.+.. .++|++.+.+|-+. ..++ . |++++-
T Consensus 78 ~~VLiiGgG~G~~~~ell~~~~~~~i~~VEiD~~Vv~~a~~~f~~~~~~~~d~r~~i~~~Dg~~~l~~~~~~~yDvIi~D 157 (246)
T PF01564_consen 78 KRVLIIGGGDGGTARELLKHPPVESITVVEIDPEVVELARKYFPEFSEGLDDPRVRIIIGDGRKFLKETQEEKYDVIIVD 157 (246)
T ss_dssp -EEEEEESTTSHHHHHHTTSTT-SEEEEEES-HHHHHHHHHHTHHHHTTGGSTTEEEEESTHHHHHHTSSST-EEEEEEE
T ss_pred CceEEEcCCChhhhhhhhhcCCcceEEEEecChHHHHHHHHhchhhccccCCCceEEEEhhhHHHHHhccCCcccEEEEe
Confidence 34556665 55566665443221 345544321 25788988888653 3444 3 666553
Q ss_pred hhccCCChH--HHHHHHHHhHHhcCCC
Q 042599 189 WILSDWDDE--ECLKILKNCCVQCNTG 213 (214)
Q Consensus 189 ~ILHdw~d~--~~~~IL~~~~~Al~pg 213 (214)
-.=-+.+.. -....++.+++.|+||
T Consensus 158 ~~dp~~~~~~l~t~ef~~~~~~~L~~~ 184 (246)
T PF01564_consen 158 LTDPDGPAPNLFTREFYQLCKRRLKPD 184 (246)
T ss_dssp SSSTTSCGGGGSSHHHHHHHHHHEEEE
T ss_pred CCCCCCCcccccCHHHHHHHHhhcCCC
Confidence 221111111 1467777777777664
No 277
>COG4742 Predicted transcriptional regulator [Transcription]
Probab=24.55 E-value=57 Score=27.19 Aligned_cols=44 Identities=9% Similarity=0.166 Sum_probs=38.2
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccCCC
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFFPN 73 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~~~ 73 (214)
|-..+++++..+..=++-|...|++.++ ++.|++|++++.++..
T Consensus 32 I~~~l~vs~~ai~pqiKkL~~~~LV~~~----------~~~Y~LS~~G~iiv~k 75 (260)
T COG4742 32 IKNELNVSSSAILPQIKKLKDKGLVVQE----------GDRYSLSSLGKIIVEK 75 (260)
T ss_pred HHHHhCCCcHHHHHHHHHHhhCCCEEec----------CCEEEecchHHHHHHH
Confidence 4556889999999999999999999996 7999999999987743
No 278
>PRK11639 zinc uptake transcriptional repressor; Provisional
Probab=24.47 E-value=77 Score=24.33 Aligned_cols=26 Identities=19% Similarity=0.252 Sum_probs=23.1
Q ss_pred CCCCCChhhHHHHHHHHhcCcceeee
Q 042599 22 KNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 22 ~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
...+++...++|.|+.|+..|++.+.
T Consensus 54 ~~~~is~aTVYRtL~~L~e~Glv~~~ 79 (169)
T PRK11639 54 AEPQAKPPTVYRALDFLLEQGFVHKV 79 (169)
T ss_pred hCCCCCcchHHHHHHHHHHCCCEEEE
Confidence 34578889999999999999999987
No 279
>TIGR01889 Staph_reg_Sar staphylococcal accessory regulator family. This model represents a family of transcriptional regulatory proteins in Staphylococcus aureus and Staphylococcus epidermidis. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family described by pfam model pfam01047.
Probab=24.45 E-value=37 Score=23.85 Aligned_cols=49 Identities=12% Similarity=0.158 Sum_probs=34.6
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccC
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFF 71 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~ 71 (214)
||..++++...+.|+++.|...|++.+.... .| ...-.+.+|+.++.+.
T Consensus 49 L~~~l~~~~stvs~~i~~Le~kg~I~r~~~~--~D-~R~~~i~lT~~G~~~~ 97 (109)
T TIGR01889 49 IIKEILIKQSALVKIIKKLSKKGYLSKERSE--DD-ERKVIISINKEQRSKI 97 (109)
T ss_pred HHHHHCCCHHHHHHHHHHHHHCCCEeccCCc--cc-CCeEEEEECHHHHHHH
Confidence 8888999999999999999999999976321 10 0012355666665443
No 280
>PRK13943 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=24.34 E-value=1.8e+02 Score=24.96 Aligned_cols=62 Identities=13% Similarity=0.157 Sum_probs=36.1
Q ss_pred CceEEccC--CccHHHHHHhCCC---c------hHHHHhhcc-----CCCceEEecCCCCcccCc---cceeeeehhccC
Q 042599 133 VPHTKAQS--GMDAFAAAAKDAR---M------NNLFNQSMH-----NHTVVEHVSGHMFIEVPN---GQALFMKWILSD 193 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~---l------~~v~~~~~~-----~~~rv~~~~gDff~~~P~---~d~y~l~~ILHd 193 (214)
..++|+|. |..+..+++..+. + +..++.+.. ..++|+++.+|..+..+. -|++++..-+++
T Consensus 82 ~~VLDIG~GtG~~a~~LA~~~~~~g~VvgVDis~~~l~~Ar~~l~~~g~~nV~~i~gD~~~~~~~~~~fD~Ii~~~g~~~ 161 (322)
T PRK13943 82 MRVLEIGGGTGYNAAVMSRVVGEKGLVVSVEYSRKICEIAKRNVRRLGIENVIFVCGDGYYGVPEFAPYDVIFVTVGVDE 161 (322)
T ss_pred CEEEEEeCCccHHHHHHHHhcCCCCEEEEEECCHHHHHHHHHHHHHcCCCcEEEEeCChhhcccccCCccEEEECCchHH
Confidence 56899996 4444455554432 1 223322221 235799999998875552 388888655444
Q ss_pred C
Q 042599 194 W 194 (214)
Q Consensus 194 w 194 (214)
.
T Consensus 162 i 162 (322)
T PRK13943 162 V 162 (322)
T ss_pred h
Confidence 3
No 281
>PRK09391 fixK transcriptional regulator FixK; Provisional
Probab=24.20 E-value=41 Score=26.90 Aligned_cols=28 Identities=14% Similarity=0.078 Sum_probs=26.4
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||..+|+.+..+.|+|+.|...|+++..
T Consensus 185 IA~~lGisretlsR~L~~L~~~GlI~~~ 212 (230)
T PRK09391 185 IADYLGLTIETVSRALSQLQDRGLIGLS 212 (230)
T ss_pred HHHHHCCCHHHHHHHHHHHHHCCcEEec
Confidence 9999999999999999999999999864
No 282
>TIGR03697 NtcA_cyano global nitrogen regulator NtcA, cyanobacterial. Members of this protein family, found in the cyanobacteria, are the global nitrogen regulator NtcA. This DNA-binding transcriptional regulator is required for expressing many different ammonia-repressible genes. The consensus NtcA-binding site is G T A N(8)T A C.
Probab=24.06 E-value=38 Score=25.87 Aligned_cols=28 Identities=14% Similarity=0.259 Sum_probs=26.6
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||..+|+....+.|+|+.|...|+++..
T Consensus 149 iA~~lG~tretvsR~l~~l~~~g~I~~~ 176 (193)
T TIGR03697 149 IAEAIGSTRVTITRLLGDLRKKKLISIH 176 (193)
T ss_pred HHHHhCCcHHHHHHHHHHHHHCCCEEec
Confidence 9999999999999999999999999874
No 283
>COG2524 Predicted transcriptional regulator, contains C-terminal CBS domains [Transcription]
Probab=23.99 E-value=47 Score=27.75 Aligned_cols=43 Identities=12% Similarity=0.108 Sum_probs=35.9
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccc
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRY 69 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~ 69 (214)
+|+.++-+|..++-.|-.|-++|+++-.+ | ..|.|..|.-+-.
T Consensus 31 IA~~l~rnpGTVRNqmq~LkaLgLVegvp------G-PkGGY~PT~kAYe 73 (294)
T COG2524 31 IAEVLNRNPGTVRNQMQSLKALGLVEGVP------G-PKGGYKPTSKAYE 73 (294)
T ss_pred HHHHHccCcchHHHHHHHHHhcCcccccc------C-CCCCccccHHHHH
Confidence 88999999999999999999999999763 1 1578988876654
No 284
>PRK04148 hypothetical protein; Provisional
Probab=23.93 E-value=1.1e+02 Score=22.70 Aligned_cols=70 Identities=3% Similarity=0.008 Sum_probs=38.0
Q ss_pred CceEEcc-C-Cc-cHHHHHHhCCCc------hHHHHhhccCCCceEEecCCCCcccC---c-cceee-eehhccCCChHH
Q 042599 133 VPHTKAQ-S-GM-DAFAAAAKDARM------NNLFNQSMHNHTVVEHVSGHMFIEVP---N-GQALF-MKWILSDWDDEE 198 (214)
Q Consensus 133 ~~~~dvg-G-G~-~~~~~~~~~P~l------~~v~~~~~~~~~rv~~~~gDff~~~P---~-~d~y~-l~~ILHdw~d~~ 198 (214)
..++||| | |. .+..+.+..-++ +..++.+.. ..+..+.+|.|+|=+ + +|+++ +| +..+
T Consensus 18 ~kileIG~GfG~~vA~~L~~~G~~ViaIDi~~~aV~~a~~--~~~~~v~dDlf~p~~~~y~~a~liysir------pp~e 89 (134)
T PRK04148 18 KKIVELGIGFYFKVAKKLKESGFDVIVIDINEKAVEKAKK--LGLNAFVDDLFNPNLEIYKNAKLIYSIR------PPRD 89 (134)
T ss_pred CEEEEEEecCCHHHHHHHHHCCCEEEEEECCHHHHHHHHH--hCCeEEECcCCCCCHHHHhcCCEEEEeC------CCHH
Confidence 4589998 4 53 233333332222 234444433 357899999999766 3 36544 44 5555
Q ss_pred HHHHHHHhHHhc
Q 042599 199 CLKILKNCCVQC 210 (214)
Q Consensus 199 ~~~IL~~~~~Al 210 (214)
-..=+.++++..
T Consensus 90 l~~~~~~la~~~ 101 (134)
T PRK04148 90 LQPFILELAKKI 101 (134)
T ss_pred HHHHHHHHHHHc
Confidence 555555555443
No 285
>PRK09416 lstR lineage-specific thermal regulator protein; Provisional
Probab=23.89 E-value=79 Score=23.60 Aligned_cols=42 Identities=17% Similarity=0.255 Sum_probs=31.8
Q ss_pred CCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccC
Q 042599 25 KETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFF 71 (214)
Q Consensus 25 ~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~ 71 (214)
.+++..++.+|+-|...|+++... .+.....|+.|+.++..+
T Consensus 74 ~~s~GtIYp~L~RLE~~GlI~s~~-----~~~~RK~Y~ITe~Gre~L 115 (135)
T PRK09416 74 EGNEGSLYTLLHRLEQNRFIQSSW-----DHEGAKYYQLTDKGNKML 115 (135)
T ss_pred cCCCccHHHHHHHHHHCCCeEEee-----cCCCceEEEECHHHHHHH
Confidence 467899999999999999998642 111246789999887654
No 286
>TIGR02787 codY_Gpos GTP-sensing transcriptional pleiotropic repressor CodY. This model represents the full length of CodY, a pleiotropic repressor in Bacillus subtilis and other Firmicutes (low-GC Gram-positive bacteria) that responds to intracellular levels of GTP and branched chain amino acids. The C-terminal helix-turn-helix DNA-binding region is modeled by pfam08222 in Pfam.
Probab=23.11 E-value=46 Score=27.47 Aligned_cols=28 Identities=18% Similarity=0.175 Sum_probs=26.6
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+++|++...+++=+|.|.+.|+++-.
T Consensus 204 LAerlGVSRs~ireAlrkLE~aGvIe~r 231 (251)
T TIGR02787 204 IADRVGITRSVIVNALRKLESAGVIESR 231 (251)
T ss_pred HHHHHCCCHHHHHHHHHHHHHCCCEEec
Confidence 8999999999999999999999999875
No 287
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=22.86 E-value=50 Score=27.12 Aligned_cols=28 Identities=14% Similarity=0.014 Sum_probs=26.8
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+.+|+++..++|-|+.|...|++.+.
T Consensus 25 la~~l~vS~~TirRdL~~Le~~g~i~r~ 52 (251)
T PRK13509 25 VIERLGISPATARRDINKLDESGKLKKV 52 (251)
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCCEEEe
Confidence 8999999999999999999999999886
No 288
>KOG1709 consensus Guanidinoacetate methyltransferase and related proteins [Amino acid transport and metabolism]
Probab=22.54 E-value=3.3e+02 Score=22.45 Aligned_cols=87 Identities=11% Similarity=0.059 Sum_probs=48.1
Q ss_pred HHHHHhcCCCceEEccCCccHH--HHHHhCCCc-------hHHHHhhcc----CCCceEEecCCCCc---ccCccceeee
Q 042599 124 LKNALLEGSVPHTKAQSGMDAF--AAAAKDARM-------NNLFNQSMH----NHTVVEHVSGHMFI---EVPNGQALFM 187 (214)
Q Consensus 124 ~~~~~~~g~~~~~dvgGG~~~~--~~~~~~P~l-------~~v~~~~~~----~~~rv~~~~gDff~---~~P~~d~y~l 187 (214)
.++++.+....++.||=|+.+. -+.++.|+. +.|+.+... ....|....|-.=+ .+|.+ + +
T Consensus 94 ~A~ai~tkggrvLnVGFGMgIidT~iQe~~p~~H~IiE~hp~V~krmr~~gw~ek~nViil~g~WeDvl~~L~d~--~-F 170 (271)
T KOG1709|consen 94 LAEAISTKGGRVLNVGFGMGIIDTFIQEAPPDEHWIIEAHPDVLKRMRDWGWREKENVIILEGRWEDVLNTLPDK--H-F 170 (271)
T ss_pred HHHHHhhCCceEEEeccchHHHHHHHhhcCCcceEEEecCHHHHHHHHhcccccccceEEEecchHhhhcccccc--C-c
Confidence 4455555446677887345444 355666665 466665432 34567777775544 44532 2 3
Q ss_pred ehhccC-C--ChHHHHHHHHHhHHhcCCC
Q 042599 188 KWILSD-W--DDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 188 ~~ILHd-w--~d~~~~~IL~~~~~Al~pg 213 (214)
.-|+.| + .-|+-+..-+++..-|+|+
T Consensus 171 DGI~yDTy~e~yEdl~~~hqh~~rLLkP~ 199 (271)
T KOG1709|consen 171 DGIYYDTYSELYEDLRHFHQHVVRLLKPE 199 (271)
T ss_pred ceeEeechhhHHHHHHHHHHHHhhhcCCC
Confidence 333333 2 2355566666777777775
No 289
>PF13814 Replic_Relax: Replication-relaxation
Probab=22.50 E-value=49 Score=25.43 Aligned_cols=53 Identities=13% Similarity=0.145 Sum_probs=35.1
Q ss_pred cCCCCCCChh---hHHHHHHHHhcCcceeeeccc-ccCCCccccceecchhccccCC
Q 042599 20 LPKNNKETPI---ILDRMLRLLASYSFLTCNLAT-NIKDGSAQRLYGLASVSRYFFP 72 (214)
Q Consensus 20 LA~~~~~~~~---~l~rlLr~L~~~gl~~~~~~~-~~~~g~~~~~y~~t~~s~~l~~ 72 (214)
|+.....+.. .+.|.|+-|...|++...... +...|+.+..|.+|+.+..++.
T Consensus 15 i~~l~~~~~~~~~~~~rrL~~L~~~glv~~~~~~~~~~~g~~~~vy~Lt~~G~~~l~ 71 (191)
T PF13814_consen 15 IARLLFPSSKSERTARRRLKRLRELGLVDRFRRRVGARGGSQPYVYYLTPAGARLLA 71 (191)
T ss_pred HHHHHcCCCcchHHHHHHHHHHhhCCcEEeecccccccCCCcceEEEECHHHHHHHH
Confidence 4444444443 799999999999999876321 0001233678999999876654
No 290
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=22.41 E-value=1.8e+02 Score=24.55 Aligned_cols=71 Identities=10% Similarity=0.047 Sum_probs=42.1
Q ss_pred CceEEccC--CccHHHHHHhCCCc------hHHHHhhc---c---CCCceEEecCCCCc-ccCccceeeeehhccCCChH
Q 042599 133 VPHTKAQS--GMDAFAAAAKDARM------NNLFNQSM---H---NHTVVEHVSGHMFI-EVPNGQALFMKWILSDWDDE 197 (214)
Q Consensus 133 ~~~~dvgG--G~~~~~~~~~~P~l------~~v~~~~~---~---~~~rv~~~~gDff~-~~P~~d~y~l~~ILHdw~d~ 197 (214)
..++|+|. |.....+++....+ +..++.+. . ..++++++.+|+.+ ..|+-|+ ++.+.-.+++..
T Consensus 38 ~~VLEIG~G~G~LT~~Ll~~~~~V~avEiD~~li~~l~~~~~~~~~~~~v~ii~~Dal~~~~~~~d~-VvaNlPY~Istp 116 (294)
T PTZ00338 38 DTVLEIGPGTGNLTEKLLQLAKKVIAIEIDPRMVAELKKRFQNSPLASKLEVIEGDALKTEFPYFDV-CVANVPYQISSP 116 (294)
T ss_pred CEEEEecCchHHHHHHHHHhCCcEEEEECCHHHHHHHHHHHHhcCCCCcEEEEECCHhhhcccccCE-EEecCCcccCcH
Confidence 46899996 55555566554432 12222211 1 14689999999985 3444464 346777777776
Q ss_pred HHHHHHH
Q 042599 198 ECLKILK 204 (214)
Q Consensus 198 ~~~~IL~ 204 (214)
...++|.
T Consensus 117 il~~ll~ 123 (294)
T PTZ00338 117 LVFKLLA 123 (294)
T ss_pred HHHHHHh
Confidence 6666664
No 291
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=22.25 E-value=59 Score=21.83 Aligned_cols=29 Identities=14% Similarity=0.124 Sum_probs=27.2
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeec
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNL 48 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~ 48 (214)
||...+++++.++-+|..++..|-+++.+
T Consensus 22 Ls~~~~~p~~~VeaMLe~l~~kGkverv~ 50 (78)
T PRK15431 22 ISQTLNTPQPMINAMLQQLESMGKAVRIQ 50 (78)
T ss_pred HHHHHCcCHHHHHHHHHHHHHCCCeEeec
Confidence 88899999999999999999999999873
No 292
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=22.19 E-value=49 Score=25.52 Aligned_cols=28 Identities=7% Similarity=0.147 Sum_probs=26.4
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||..+|+....+.|+|+-|...|+++..
T Consensus 155 iA~~lG~tretvsR~l~~l~~~g~I~~~ 182 (202)
T PRK13918 155 LAAAVGSVRETVTKVIGELSREGYIRSG 182 (202)
T ss_pred HHHHhCccHHHHHHHHHHHHHCCCEEcC
Confidence 9999999999999999999999999853
No 293
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=21.85 E-value=64 Score=26.53 Aligned_cols=28 Identities=21% Similarity=0.166 Sum_probs=26.9
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+..++++.-++|-|..|...|++.+.
T Consensus 25 la~~l~vS~~TiRRdL~~Le~~g~l~r~ 52 (252)
T PRK10906 25 LVEHFSVSPQTIRRDLNDLAEQNKILRH 52 (252)
T ss_pred HHHHhCCCHHHHHHHHHHHHHCCCEEEe
Confidence 8999999999999999999999999886
No 294
>PRK13777 transcriptional regulator Hpr; Provisional
Probab=21.72 E-value=69 Score=25.17 Aligned_cols=50 Identities=12% Similarity=0.060 Sum_probs=36.8
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhccccCC
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYFFP 72 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l~~ 72 (214)
||+.++++...+.|++.-|...|++++.... .| ...-...+|+.++.+..
T Consensus 65 La~~l~l~~sTvtr~l~rLE~kGlI~R~~~~--~D-rR~~~I~LTekG~~l~~ 114 (185)
T PRK13777 65 IAKFGVMHVSTAFNFSKKLEERGYLTFSKKE--DD-KRNTYIELTEKGEELLL 114 (185)
T ss_pred HHHHHCCCHhhHHHHHHHHHHCCCEEecCCC--CC-CCeeEEEECHHHHHHHH
Confidence 8888999999999999999999999986321 10 01224577887776653
No 295
>COG4076 Predicted RNA methylase [General function prediction only]
Probab=21.60 E-value=2.2e+02 Score=22.89 Aligned_cols=78 Identities=13% Similarity=0.138 Sum_probs=43.8
Q ss_pred CceEEccCCccHHHHHH-----------hCCCchHHHHhh--ccCCCceEEecCCCCc-ccCccceeeeehhccCCChHH
Q 042599 133 VPHTKAQSGMDAFAAAA-----------KDARMNNLFNQS--MHNHTVVEHVSGHMFI-EVPNGQALFMKWILSDWDDEE 198 (214)
Q Consensus 133 ~~~~dvgGG~~~~~~~~-----------~~P~l~~v~~~~--~~~~~rv~~~~gDff~-~~P~~d~y~l~~ILHdw~d~~ 198 (214)
..|-|.|.|.....+.. ++|......... ......++.+.||-.+ .+-+||++..-.+=--.-+|+
T Consensus 34 d~~~DLGaGsGiLs~~Aa~~A~rViAiE~dPk~a~~a~eN~~v~g~~n~evv~gDA~~y~fe~ADvvicEmlDTaLi~E~ 113 (252)
T COG4076 34 DTFADLGAGSGILSVVAAHAAERVIAIEKDPKRARLAEENLHVPGDVNWEVVVGDARDYDFENADVVICEMLDTALIEEK 113 (252)
T ss_pred hceeeccCCcchHHHHHHhhhceEEEEecCcHHHHHhhhcCCCCCCcceEEEecccccccccccceeHHHHhhHHhhccc
Confidence 57889986554443322 234333333332 1235679999999875 455678776443322234566
Q ss_pred HHHHHHHhHHhc
Q 042599 199 CLKILKNCCVQC 210 (214)
Q Consensus 199 ~~~IL~~~~~Al 210 (214)
-+..++.+.+=|
T Consensus 114 qVpV~n~vleFL 125 (252)
T COG4076 114 QVPVINAVLEFL 125 (252)
T ss_pred ccHHHHHHHHHh
Confidence 666666665533
No 296
>PF07120 DUF1376: Protein of unknown function (DUF1376); InterPro: IPR010781 This entry is represented by Bacteriophage PBC5 (Sinorhizobium phage PBC5), Orf49. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical bacterial proteins of around 95 residues in length. The function of this family is unknown.
Probab=21.52 E-value=39 Score=22.92 Aligned_cols=40 Identities=10% Similarity=-0.012 Sum_probs=29.5
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhcccc
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVSRYF 70 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s~~l 70 (214)
||..+|++...-.+++..+...++ ... +|.+.|...-+.+
T Consensus 46 Lar~~~~s~~~~~~a~~~ll~~f~-~~~----------dg~~~~~r~e~Ei 85 (88)
T PF07120_consen 46 LARICGCSTKEWRKALDFLLREFF-RLE----------DGRWWNKRCEEEI 85 (88)
T ss_pred HHHHHCcCHHHHHHHHHHHHHhCC-CCC----------CCCEehHHHHHHH
Confidence 777888888888888888888877 332 6788887665443
No 297
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=21.49 E-value=47 Score=24.92 Aligned_cols=24 Identities=21% Similarity=0.119 Sum_probs=21.8
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcc
Q 042599 20 LPKNNKETPIILDRMLRLLASYSF 43 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl 43 (214)
||+.+|++...++++|..|..-++
T Consensus 21 La~~l~i~~n~vRkiL~~L~ed~~ 44 (147)
T smart00531 21 LAELLGIKQKQLRKILYLLYDEKL 44 (147)
T ss_pred HHHHhCCCHHHHHHHHHHHHhhhc
Confidence 999999999999999999999444
No 298
>COG1725 Predicted transcriptional regulators [Transcription]
Probab=21.33 E-value=65 Score=23.68 Aligned_cols=28 Identities=18% Similarity=0.220 Sum_probs=26.6
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||..+|+++..+.|-.+.|...|++.-.
T Consensus 41 lA~~~~VNpnTv~raY~eLE~eG~i~t~ 68 (125)
T COG1725 41 LAKDLGVNPNTVQRAYQELEREGIVETK 68 (125)
T ss_pred HHHHhCCCHHHHHHHHHHHHHCCCEEEe
Confidence 8999999999999999999999999875
No 299
>TIGR03704 PrmC_rel_meth putative protein-(glutamine-N5) methyltransferase, unknown substrate-specific. This protein family is closely related to two different families of protein-(glutamine-N5) methyltransferase. The first is PrmB, which modifies ribosomal protein L3 in some bacteria. The second is PrmC (HemK), which modifies peptide chain release factors 1 and 2 in most bacteria and also in eukaryotes. The glutamine side chain-binding motif NPPY shared by PrmB and PrmC is N[VAT]PY in this family. The protein substrate is unknown.
Probab=20.95 E-value=2.1e+02 Score=23.33 Aligned_cols=55 Identities=15% Similarity=0.049 Sum_probs=31.6
Q ss_pred CceEEccCC--ccHHHHHHhCCCc--------hHHHHhhccC--CCceEEecCCCCcccCc-----cceeee
Q 042599 133 VPHTKAQSG--MDAFAAAAKDARM--------NNLFNQSMHN--HTVVEHVSGHMFIEVPN-----GQALFM 187 (214)
Q Consensus 133 ~~~~dvgGG--~~~~~~~~~~P~l--------~~v~~~~~~~--~~rv~~~~gDff~~~P~-----~d~y~l 187 (214)
..++|+|.| ..+..+++..|.. +..++.+..+ ...++++.+|+++.+++ -|+++.
T Consensus 88 ~~vLDlg~GsG~i~l~la~~~~~~~v~~vDis~~al~~A~~N~~~~~~~~~~~D~~~~l~~~~~~~fDlVv~ 159 (251)
T TIGR03704 88 LVVVDLCCGSGAVGAALAAALDGIELHAADIDPAAVRCARRNLADAGGTVHEGDLYDALPTALRGRVDILAA 159 (251)
T ss_pred CEEEEecCchHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCEEEEeechhhcchhcCCCEeEEEE
Confidence 368999974 4455566666643 2333333221 12357899999876541 276654
No 300
>PF07574 SMC_Nse1: Nse1 non-SMC component of SMC5-6 complex; InterPro: IPR011513 Saccharomyces cerevisiae Nse1 (Q07913 from SWISSPROT) forms part of a complex with SMC5-SMC6. This non-structural maintenance of chromosomes (SMC) complex plays an essential role in genomic stability, being involved in DNA repair and DNA metabolism [, ]. It is conserved in eukaryotes from yeast to human.; PDB: 3NW0_A.
Probab=20.76 E-value=91 Score=24.63 Aligned_cols=35 Identities=14% Similarity=0.172 Sum_probs=24.2
Q ss_pred CCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchhc
Q 042599 24 NKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASVS 67 (214)
Q Consensus 24 ~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~s 67 (214)
.++...-...+|.-|+..|.|.... .|.|.+++-+
T Consensus 162 ~~L~~~eae~lL~~lv~~gWl~~s~---------~G~y~L~~Ra 196 (200)
T PF07574_consen 162 KGLSKSEAESLLDRLVEDGWLYRSR---------EGFYSLGPRA 196 (200)
T ss_dssp -----HHHHHHHHHHHHTTSE-EEE---------TTEEEE-HHH
T ss_pred ccchHHHHHHHHHHHHHCCCceeCC---------CCEEEEChHH
Confidence 3456778999999999999997762 7899998865
No 301
>KOG1270 consensus Methyltransferases [Coenzyme transport and metabolism]
Probab=20.66 E-value=1.6e+02 Score=24.82 Aligned_cols=45 Identities=11% Similarity=-0.042 Sum_probs=33.8
Q ss_pred ceEEecCCCCcccCccceeeeehhccCCChHHHHHHHHHhHHhcCCC
Q 042599 167 VVEHVSGHMFIEVPNGQALFMKWILSDWDDEECLKILKNCCVQCNTG 213 (214)
Q Consensus 167 rv~~~~gDff~~~P~~d~y~l~~ILHdw~d~~~~~IL~~~~~Al~pg 213 (214)
|+++...|.=+-.++=|++....|||.-.|- ..+|+.+.+.++||
T Consensus 144 ~l~~~~~~~E~~~~~fDaVvcsevleHV~dp--~~~l~~l~~~lkP~ 188 (282)
T KOG1270|consen 144 RLEYEDTDVEGLTGKFDAVVCSEVLEHVKDP--QEFLNCLSALLKPN 188 (282)
T ss_pred eeehhhcchhhcccccceeeeHHHHHHHhCH--HHHHHHHHHHhCCC
Confidence 5777776665555556999999999887554 46788888888887
No 302
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=20.48 E-value=97 Score=25.12 Aligned_cols=50 Identities=24% Similarity=0.399 Sum_probs=38.0
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCC-c-cccceecchhccccCC
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDG-S-AQRLYGLASVSRYFFP 72 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g-~-~~~~y~~t~~s~~l~~ 72 (214)
||+++|+++..++|=|..|++.|+++.... ..| + ..-.|++|..++....
T Consensus 31 lA~~Lgis~~avR~HL~~Le~~Glv~~~~~---~~g~GRP~~~y~Lt~~g~~~f~ 82 (218)
T COG2345 31 LAEELGISPMAVRRHLDDLEAEGLVEVERQ---QGGRGRPAKLYRLTEKGREQFP 82 (218)
T ss_pred HHHHhCCCHHHHHHHHHHHHhCcceeeeec---cCCCCCCceeeeecccchhhcc
Confidence 899999999999999999999999986421 111 1 1346999988876443
No 303
>PF07021 MetW: Methionine biosynthesis protein MetW; InterPro: IPR010743 This family consists of several bacterial and one archaeal methionine biosynthesis MetW proteins. Biosynthesis of methionine from homoserine in Pseudomonas putida takes place in three steps. The first step is the acylation of homoserine to yield an acyl-L-homoserine. This reaction is catalysed by the products of the metXW genes and is equivalent to the first step in enterobacteria, Gram-positive bacteria and fungi, except that in these microorganisms the reaction is catalysed by a single polypeptide (the product of the metA gene in Escherichia coli and the met5 gene product in Neurospora crassa). In P. putida, as in Gram-positive bacteria and certain fungi, the second and third steps are a direct sulphydrylation that converts the O-acyl-L-homoserine into homocysteine and further methylation to yield methionine. The latter reaction can be mediated by either of the two methionine synthetases present in the cells [].
Probab=20.40 E-value=1.7e+02 Score=23.19 Aligned_cols=69 Identities=10% Similarity=0.101 Sum_probs=42.6
Q ss_pred HHHHHhcCCCceEEccC--CccHHHHHHhCCCc--------hHHHHhhccCCCceEEecCCCCc---ccCc-c-ceeeee
Q 042599 124 LKNALLEGSVPHTKAQS--GMDAFAAAAKDARM--------NNLFNQSMHNHTVVEHVSGHMFI---EVPN-G-QALFMK 188 (214)
Q Consensus 124 ~~~~~~~g~~~~~dvgG--G~~~~~~~~~~P~l--------~~v~~~~~~~~~rv~~~~gDff~---~~P~-~-d~y~l~ 188 (214)
+.++|..| +.++|+|. |... +++++..+. ++-+....+ ..+..+.+|.=+ .+|. . |.++|.
T Consensus 7 I~~~I~pg-srVLDLGCGdG~LL-~~L~~~k~v~g~GvEid~~~v~~cv~--rGv~Viq~Dld~gL~~f~d~sFD~VIls 82 (193)
T PF07021_consen 7 IAEWIEPG-SRVLDLGCGDGELL-AYLKDEKQVDGYGVEIDPDNVAACVA--RGVSVIQGDLDEGLADFPDQSFDYVILS 82 (193)
T ss_pred HHHHcCCC-CEEEecCCCchHHH-HHHHHhcCCeEEEEecCHHHHHHHHH--cCCCEEECCHHHhHhhCCCCCccEEehH
Confidence 34556554 78999996 5444 444433332 223333333 467888899875 3563 4 999999
Q ss_pred hhccCCCh
Q 042599 189 WILSDWDD 196 (214)
Q Consensus 189 ~ILHdw~d 196 (214)
+.|-....
T Consensus 83 qtLQ~~~~ 90 (193)
T PF07021_consen 83 QTLQAVRR 90 (193)
T ss_pred hHHHhHhH
Confidence 99877544
No 304
>COG3682 Predicted transcriptional regulator [Transcription]
Probab=20.16 E-value=1e+02 Score=22.60 Aligned_cols=39 Identities=21% Similarity=0.307 Sum_probs=32.3
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeeecccccCCCccccceecchh
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCNLATNIKDGSAQRLYGLASV 66 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~g~~~~~y~~t~~ 66 (214)
|.+........+.-||+-|+--|++...+ + ++.|..+|+
T Consensus 30 l~~~~ews~sTV~TLl~RL~KKg~l~~~k-----d---gr~~~y~pL 68 (123)
T COG3682 30 LPADREWSYSTVKTLLNRLVKKGLLTRKK-----D---GRAFRYSPL 68 (123)
T ss_pred HhhcccccHHHHHHHHHHHHhccchhhhh-----c---CCeeeeecc
Confidence 67778889999999999999999999873 2 677777665
No 305
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=20.04 E-value=64 Score=26.79 Aligned_cols=28 Identities=11% Similarity=0.074 Sum_probs=27.0
Q ss_pred cCCCCCCChhhHHHHHHHHhcCcceeee
Q 042599 20 LPKNNKETPIILDRMLRLLASYSFLTCN 47 (214)
Q Consensus 20 LA~~~~~~~~~l~rlLr~L~~~gl~~~~ 47 (214)
||+.+++++.-++|=|..|...|++.+.
T Consensus 37 La~~l~VS~~TIRRDL~~Le~~G~l~r~ 64 (269)
T PRK09802 37 LSALYGVSTVTIRNDLAFLEKQGIAVRA 64 (269)
T ss_pred HHHHHCCCHHHHHHHHHHHHhCCCeEEE
Confidence 9999999999999999999999999986
Done!